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10 points along a graph by lucifers-toy

Ten fantasies John Sheppard fulfilled on the way to happiness

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17 Times by Tarlan

After sixteen attempts to get John to notice him, Rodney decides on a desperate course of action.

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17.5 by Helen

He had never in his life thought that another guy had a pretty mouth; he wasn’t going to start now.

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264 Hours by Lenore

Post The Siege III. McKay/male hooker -> McKay/Sheppard.

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30 Nights of Day by Pollitt

Very vague Zelenka/OFC.

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5 - 1 = ? by Allaire Mikháil

John loses his sight.

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A Beautiful Lifetime Event by shalott

Sequels/In Same Universe: Surprise,Double Bed

There's also Parenting in the Pegasus Galaxy by Brighid, but it's in a locked post. That's the story about Hyp getting her period.

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A Pan of Gold, and Water by latentfunction

McKay/Sheppard, past Sumner/Elizabeth, Ronon/Elizabeth.

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A Pocket Full of Posies by giogio

There were two reasons John was reassigned to Antarctica: one was splashed all over his service record, the other, as per regulations, arrived in a sealed envelope from his previous CO to his new CO marked "To Be Opened By Addressee Only."

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A Regency SGA Tale by GraceandFire

John wants revenge on the villanous McKay family, but Teyla begs him to spare the younger son, Rodney.

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A Sappy Country Love Song by allwhowander121

John long ago made the decision it would be his life for Rodney’s

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A Supermarket in California by taffetablue

Sequel: City Hall. John is ex-military and inherits his uncle's supermarket in California. Rodney teaches at Berkeley.

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A Truth for a Truth by gottalovev

Severe solitary confinement is a bitch. Ask John.

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A Wish For Wings by barely_bean

John is an Elf. A Santa toymaker Elf.

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A blue true dream of sky by Isilya

Rodney is a scientist investigating the enviromental plage known as Wraith. John is a cattle owner who's forced to help him

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A new explanation by Bluespirit

Relationships and perspectives change once Atlantis is back on Earth.

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A new history of Captain John Sheppard by sheafrotherdon

His Majesty's Aerial Corps stand ready to welcome new additions to their number; an expedition late of the Antipodes. SGA/Temeraire crossover.

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Absolute Corruption by Cypher

An AU based on the SG-1 episode "Absolute Power".

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Action! by Ulthyrja

John is going to do his first porn movie, Rodney is the fluffer

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Advantage by Resonant

An alien mark makes John want to please Rodney any way possible.

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Affaire du Coeur by tzigane, Kat Reitz

John had shown up at his apartment all of three weeks ago with his suitcases and his fucked up face wearing his dress uniform.

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Alterations by moth2fic

Changes brought about by ancient technology can bring changes to the heart.

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An Aesthetic Solitary Thing by eliade

As it turns out, Rodney is not completely human.

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Anchor Me by redsnake05

It's finally hamburgers, of all things, that prompt some honesty out of them.

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Ancient Solutions by aqualegia

A return visit to a trading partner starts a new chapter in John and Rodney's relationship.

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And Hope by Sihaya Black

While on a mission, John Sheppard discovers a device, but he doesn't expect what's inside.

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And The Plural For Penis Is? by ru_salki99

John falls victim to an Ancient population control device and becomes, well, female.

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Animal Husbandry by casspeach

John's a cowboy in search of his chance, Rodney is the new vet in town

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Ardhanarishvara by Auburn, monanotlisa

"Tell me, Colonel, did you take a look around and think, hey, it's the Planet of Sex Changes?"

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As You Wish by Nel

An alien device makes Rodney want to please John.

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Ascending Order by argosy

Spoilers up to and including 3.20 "First Strike."

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Atlantis City Limits by sardonicsmiley

John wins a not-guitar in a raffle on P3R-242. Turns our Rodney knows how to play one.

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Attention Seeking by Tarlan

Atlantis is heading home but, for once, Rodney's attention is caught elsewhere.

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Bare Skin by mz_bstone

He pulled war back on like an old robe, wore its mantle and lived the part, though in his heart he’d lost the taste for it so very long ago.

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Batman's Brain by savingfaith333

John’s gonna die saving the world someday, and Rodney doesn’t approve.

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Before & After by helena_eternal

It was before the President’s visit, but after the Iratus bug, that I realized what existed between you both. When Carson said I’m sorry, John, I’m so, so sorry, but there’s nothing I can do, the Colonel did not look at Carson or Elizabeth, Teyla or Ronan, Caldwell or me. He looked at you.

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Blush by Helen

It's not a bug, it's a feature. Remixed as Selfish

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Breaking the Mold by snowglow1275

This wasn’t like he’d simply been turned into a girl. That might be a little cool, for a while. But just knowing this body wasn’t his, that it had an original owner, one that would be getting it back, made him nervous about how he treated this body.

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Broadcast Signal by sgamadison

Great. Obviously he was now destined to see dead people.

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Broken Series by sgatlantislight

Don't Ask Don't Tell is repealed, but only in Atlantis. Mostly McKay/Sheppard, but with Beckett/Zelenka scenes. Also past McKay/Zelenka.

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Busted by mezzo_cammin

Certain people should lock their doors if they don't want John to walk in on them.

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Cases of Mistaken Identity by sardonicsmiley

Aliens mistake John for Rodney.

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Casual by Punk

First time implied.

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Catalyst by the_cephalopod

(Entry f'locked) Really, there is something seriously wrong when the highlight of their respective days is a game of chess. The mere idea that the attraction lies in something other than the challenge of the game is something on which Rodney steadfastly refuses to dwell.

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Caught in the Gravitational Pull of Onderon. by reddwarfer

Rodney is sure of only two things when Jeannie decides to come back to Atlantis for a short research project: the city is not big enough for both of them and he's grateful for his accrued vacation time.

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Century Hotel Series by Tarlan

Crossover with Century Hotel. Michael was David Hewlett's character in that movie. Mostly Century Hotel, crossover with SGA by the end and in the sequel.

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Chain Reaction by the_cephalopod

Rodney gets kidnapped and John comes to the rescue, but when they're both back home on Atlantis, it seems that things are only just beginning...

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Change of plans by kHo

When they leave the San Francisco Bay and take to the skies on their way back to Pegasus, Rodney is angry. Angry, and bitter, and sad. He’s withdrawn, keeping to himself and ignoring anyone and everyone that tries to speak to him.

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Chronologic by purna

Time-traveling doppelgangers.

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Coping with John by kassrachel

Rodney's not attracted to John. Oh, no, not at all.

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Courtship by Karen Mcfadyyon

"Somehow, I'm not sure that our diplomatic efforts should include the Magical Mystery Tour," Rodney said.

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Critical Error by Tarlan

The intention to destroy Atlantis changes when the plot is uncovered. The Goa'uld infesting Caldwell takes control of the city, trapping John, Rodney and a several others in Atlantis, completely at the Goa'uld's mercy. Their only hope of taking back the city before the Wraith learn of its continued existence, lies with Rodney and, perhaps not so surprisingly, Jack O'Neill.

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Cultural Exchange by lamardeuse

"What does he think we are, Fine Arts majors?" Rodney grumbled.

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DNA or Die by almostnever (Cesare)

"You activated the medical database collection apparatus. Now it wants your DNA," Rodney reports.

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Damned If You Do, and Damned If You Don’t by pir8fancier

Yes, there were signs, and if he hadn't been thinking with his dick he would have twigged to them immediately.

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Dark Places, Deep Water, Crowds, and Ducks. by Cassandra Pierson (ca_pierson)

Rodney was sure he'd never seen the stranger before, he'd remember that smile. And the hair.

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Definition of Unsubtly by tigerlady

John and Rodney get stranded on a planet together.

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Defuse by solvent90 (solvent)

"Bomb," Rodney said, breathless but managing the right tone of exasperation and distraction, "shut up, I got it," and he had, things clicking suddenly clear as Sheppard hauled himself to his feet and poked his pointy chin over Rodney's shoulder.

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Deprivation by mikes_grrl

Sheppard has a no-cross personal DMZ around him…until he doesn’t.

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Destiny Revisited by lavvyan

Merlin/Arthur, McKay/Sheppard in a Merlin/SGA fusion.

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Do I Dare Disturb the Universe by vaguely_concerned

"When Faith Lumsbred disobeys the decree of Queen Harmony and goes into the forbidden part of the woods, she expects to discover something cool, or at least something suitably unsettling. Finding instead an ageing astrophysicist and his cat she decides to get to the bottom of the things. How did McKay end up here? Why has the queen gone to such lengths to keep him hidden? And what exactly has he been doing out here all by himself?"

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Don't Ask by neevebrody

Sequel: Show...Don't Tell
Not that he didn't want to do this, he'd just always thought he'd make his move when the time was right. But with someone else interested... John knew the time was right, now.

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Double Escapement by Gloria Mundi (viva_gloria)

AU: Europe, 1820; swords to ploughshares (or rather to musical instruments). Rodney wants better, louder, more...

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Double Occupancy by Isis

A device makes John and Rodney's minds share Rodney's body. Written before "Duet".

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Double Trouble by Keikokin

Sequel: Double Trouble Deux. John's twin brother comes to Atlantis.

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Draconian Measures by Tarlan

With the Ori on the way to Earth, Rodney becomes President Landry's chief science adviser, but without a ZPM, is only a matter of time before Earth falls. John's last Afganistan mission never happened, and he's now a full Colonel leading the F302 in the Petersen base. The USA is under martial law after people rioted in fear when Stargate project went public. However, the threat comes from an unexpected direction.

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Dreaming with a Broken Heart by shao_fu

The SGC loses a Wraith on Earth and Torchwood finds it. PArt 2, Part 3

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Dressed to Kill by velocitygrass

Rodney was a genius in all things that mattered. Dressing to impress hadn't been one of them until today.

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Emissions by lavvyan

Rodney gets telepathy & empathy.

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Epiphanies Aren't Just For Ancients (and Other Hard Learned Lessons) by djin7, reddwarfer

John Sheppard knows that sometimes, the quickest way to end a war is to lose it. But if he has to go down, he's taking Rodney with him.

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Event Horizon by chelle

Don't Ask Don't Tell is repealed. John takes a chance.

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Evil Overlord Sheppard by GraceandFire

Rodney is captured by High Lord John of the Planet Leiath in the Pegasus Galaxy.

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Familiar by sgatlantislight

Newbie wizard Jahn the Shepherd invokes a demon to help them against the Wraith: Merodis-rodnee-mickay.

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Fate by Neo_Star0114

John is a Colorado Springs police detective working with the SGC. Rodney is a sorcerer consulting with them.

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Feels Like Home by jadesfire2808

John first runs away from home when he is eight years old

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Feels Like Sunshine by enigmaticblues

Rodney has always liked John's hands.

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Find Me by wolfshark (sharkie)

Rodney finds a clip of a younger John having sex with a man.

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Finding Oneself Within by TMar

John gets turned into a woman and gets pregnant by Rodney.

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Flash Point by altyronsmaker

Rodney's an emergency management official called in to deal with an out of control Colorado wildfire. John's a smokejumper crew leader with a past. Together, they work to put out the flames of one fire, while another one ignites between them.

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Flying Blind by domtheknight, nudaydreamer

Rodney is a best-selling SF author. His friend Samantha Carter sets him in a blind date.

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For Better or For Worse by crownglass39

John meets Rodney in a brothel and then has to marry him.

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Forever Home by kassrachel

John and Rodney find themselves far from home, with people that don't know the Stargate.

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Forever Lost by Tarlan

In a city the size of lower Manhattan, it's easy to get lost....forever. (Not John or Rodney)

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Freedom's Chance by ladysorka

"Nobody ends up out here if they're on the good side of Fleet and Core, kid." A space opera AU.

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Funny Little Secret by Crysothemis

Having a secret admirer was a lot more complicated than Rodney had expected.

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Genius by Lunabee34

The colonel is looking at Rodney’s crotch, at the unmistakable bulge in his pants and damn it. Rodney can’t help himself; he’s always responded to success this way.

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Geniuses by Layton Colt (Nixa Jane)

Daniel visits Atlantis, and stirs up trouble.

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Glass Houses by MistoKitt

Rodney looked back and forth between John and the man on the doorstep. A slow sinking feeling started in the pit of his stomach as he began to realize why the ears had seemed familiar. And the hair, now that he thought about it.

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Got My Signals Crossed by mckays_girl

"Since when are relationships about obeying, Sheppard," Rodney argues. "And . . . wait, what?"

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Had Joys No Date Nor Age No Need by altyronsmaker

Rodney turned and looked at John. “You know,“ he said, “I'm ready to go.“ John turned to face him, and he knew right away that Rodney was talking about more than just leaving the remnants of the festival.

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Hair Today by Zinnith

John and Rodney meet at the same hair saloon... run by Halling.

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Hello Timebomb and Scar Tissue by coreopsis

Link to "Scar Tissue", which has the link to "Hello Timebomb".

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Hello, I Must be Going by Stormy Stormheller

While John is awaiting the resolution of the Afghanistan incident, he meets Rodney in a bar.

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Here Every Language Is Silent by enigmaticblues

Sometimes, you don't know what you have until it's gone.

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High-Water by lavvyan

Once upon a time (well, about forty years ago) a water sprite fell in love with one of Earth's children, a spirit with wild eyes and hair and laughter.

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Home In Time For Jeopardy by shakespherical

Even the defeat of the Wraith and a bright future in the Pegasus galaxy doesn’t mean that the universe isn’t ultimately random and cruel. Or that love can’t be found in the ruins of your own life.

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Home is Where the Heart is by morena donn

Also Beckett/Ford. Rodney is called home by his sister to help their friend Carson. Rich heir in disguise John and his PA Ford wander by their farms

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Honor Guard series by mayachain (ms_jvh_shuh)

Earthside, a Pegasus veteran stands guard over her commanding officer, who got shot on his way to Dr McKay's wedding.

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Hot Water by Alizarin

It's been too long since John has had sex.

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How Much For the Little Girl? by jenn

Rodney accidentally sells John into slavery.

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How Zelenka's Crush on Weir Made For Strange Events Between Rodney and John by wpadmirer

Rodney tries to share his new wealth of porn, which leads to all kinds of discussion and eventual experiments with John.

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Hustle by Zinnith

John, Rodney, Teyla and Ronon are con artists.

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If at First... by Orithain

What if Elizabeth wasn't the only one to survive in the first timeline?

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In the Blood by Keira Marcos

"It really shouldn't be funny but you know I've always sort of suspected that we'd have a joint funeral."

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Inarticulate by mific

John's better with actions than with words

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Inevitable by Tarlan

John knew Rodney's relationship with Keller was doomed to failure...eventually.

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Interstitial by Lunabee34

Rodney has always lived in the spaces between.

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It Takes a Week to Form an Ulcer by paw_tracks

John is a couples therapist. Rodney is dragged to his consult by his girlfriend, Katie.

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It's A Jungle Out There by Neo_Star0114

Fusion with Monk. Rodney is Monk. John is his assistant.

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It's What You Don't See by telesilla

Rodney McKay's been a loner for close to 400 years now, which is why it makes no sense when he falls hard for a Blood Bank worker named John Sheppard.

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It's What You Hear (The Five Senses Remix) by argosy

Remix of It's What You Don't See by telesilla. After nearly 200 years as a loner, John Sheppard finds himself drawn to a blood bank worker named Rodney McKay.

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It's a Small World After All by pir8fancier

FUBAR happens on Atlantis, John disappears, two years later Rodney takes a vacation to Disneyland, and who do you think is working at Soaring Over California?

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I’ll See It Through (The Texas Two-Step Mix) by dee_laundry

"You really can get anything online these days," Rodney thought as he finished the form on MatchYourType.com. Any special requests? was the last item. "English speaker willing to relocate to Romania."

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Jennifer by TeaAndCoffeOwl

It breaks Jennifer's heart when she realizes that Rodney's not in love with her.

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Judas Doesn't Answer by Auburn

O'Neill and Woolsey arrive in Atlantis along with SG-1. Shortly thereafter, Sheppard and McKay find themselves in a race to catch a murderer.

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Juiced Up by velocitygrass

Under the influence of alien beverage, John reveals his feelings to Rodney. Not that he's capable of actually talking about it.

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Lean on Me by Master Elayna

Ex-military John down on his luck meets FBI Rodney.

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Like Pulling a Rabbit out of a Hat by curia_regis

When they discover alien ships heading towards Atlantis, Rodney has yet another brilliant plan to save them. Unfortunately, this plan goes horribly wrong.

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Like a Coin by yesj

They’ve been in Atlantis for a few months when Rodney decides that John Sheppard has made it his personal mission to drive Rodney nuts.

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Little Fish by anne isabelle

Because he's a virgin, Rodney must give his "little fish" to the priestesses.

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Long Way Home by kimberlite

Returning to Earth stirs up hidden yearnings and ghosts from Sheppard's past.

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Look at the Pilot by Talayse

Snippet sequel: Morning Contemplation. Fusion with Farscape. Rodney is John Crichton, John is Aeryn Sun.

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Looking Glass by chelle

Aliens put Rodney in a two-week "learning trance".

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M(eredith + 1) Theory by lallybroch

John and Rodney arrive at another dimension where Rodney is a woman.

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Match Point by foxxcub

John is a pro beach volleyball player. Rodney is a scientist on vacation.

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Message in a Bottle by mikes_grrl

John brought up the strangest things when they were having sex, but Rodney learned to just railroad past the weird and get to the good stuff.

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Mirror, Mirror, On The Wall by Tarlan

Past McKay/Jonas Quinn, Sheppard/Carter in the AU.
An Ancient device exchanges John with his counterpart in another dimension.

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Moonstruck by Goddess47

A widowed John Sheppard comes to ask Rodney McKay to attend a wedding..." John's marrying Rodney's spendthrift sister Jeannie!

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Morning After by melagan

John's hoping....

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Necessary Evil by Tarlan

Rodney recognized affection beneath the dry tone, and wondered why he had never bothered to study all the subtleties of human behavior before, especially Sheppard's.

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No Refunds or Exchanges by shalott

Atlantis head scientist Rodney orders a mail-order bride. He gets ex-military pilot John instead.

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Nonverbal by Princess_Bunny

Telepathy. McKay/Sheppard sex, McKay/Sheppard/Beckett implied.

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Obvious by dragojustine

Because, honestly, "Sheppard is gay" scored somewhere between Boyle's Law and special relativity in the "things that are bogglingly obvious once you discover them" category.

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Offer me Solutions by Tarlan

When the Trust try to destroy the ZPM room, leaving Atlantis adrift between the two galaxies on the way back to Pegasus, Rodney and Radek work hard to get it repaired. When exhaustion leads to mistakes being made, John has the right solution.

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On a Clear Day by callmerizzo

John has always known that Rodney is braver than he gives himself credit for.

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One Eyed Monster by wolfshark (sharkie)

It's John's and Rodney's first time, and there's a surprise in store.

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One Man's Island by lavvyan

John is a quarter werewolf.

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Open Your Eyes by parrotfic

John is hired as the new football coach. Rodney is subbing as physics teacher for his sister.

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Out into the real world by Mithreon

Fusion with The Matrix. McKay/Sheppard, implied Weir/Caldwell, past Sheppard/Weir, Halling/Teyla, Ronon/Teyla UST.

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Pegasus B by Various authors

An AU universe with several off-shots. One of them is Daniel/Rodney -> Daniel/Rodney/Sheppard -> Rodney/Sheppard & Jack/Daniel. See the Pegasus B Story Guide.

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Piece by Piece by nakatas_cat

John gets interrogated mentally by telepaths and is forced to relive some very personal moments of his life in the Pegasus galaxy. Rodney doesn't leave his side and tries to come up with a plan to free John.

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Pink by Soraya

It's 'aliens made them do it' with a bit of syrup thrown in there.

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Place Your Hand by chelle

Deals with the aftermath of rape.

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Placebo by almostnever (Cesare)

"You might cut it off... Ronon has knives. You drilled into my head with a, a drill," Rodney said weakly.

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Plain White Tee by gblvr

Rodney wraps his Christmas presents in tee shirts....

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Plan C, or How Rodney McKay Lost His Wife and Gained a Galaxy by toomuchplor

Billionaire Rodney learns that his soon-to-be ex-wife Sam Carter has a new boyfriend, John Sheppard. And who gets the cat in the divorce?

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Prince Charming by coreopsis

Scientist Rodney is convinced by his friend Carson to participate in a bachelor auction. Businessman John is there

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Professional Jealousy by tex

Rodney is dissed by one of his colleagues. But John knows how to make it right. Remix of: Professional Jealousy

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Professional Jealousy (The Special Delivery Remix) by tex

Rodney is dissed by one of his colleagues. But John knows how to make it right.

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Pure Bodies and Clean Hearts by Speranza

John has to go through a painful purification process.

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Rave Atlantis by Smitty

Sheppard/Cadman, McKay/Cadman, Sheppard/Cadman/McKay, Sheppard/McKay.

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Regions of Darkness and Light by puddle_of_goo

John and Rodney get sent to Earth to recover from a bad mission, while there Atlantis is partially declassified and someone has to do the press.

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Rodney McKay and the Hot-Blooded Pilot by Fabula Rasa

Amazon doesn't make shipments to the Pegasus Galaxy. What's a Harry Potter fan to do? (On the Wayback Machine)

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Rodney's Hugs by snowglow1275

Rodney couldn’t help it, needed to feel for himself that Sheppard was alive and well

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Roommates by sheafrotherdon, dogeared, aesc/HF

A commentfic with art by aesc, Rated R - Prequel: Martha Stewart's Private Hell

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Second Chance by sgamadison

Major Sheppard always wondered how his life would have turned out if he had only gone on the expedition to Atlantis instead of returning home at his father's request.

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Short and Stout by Xela

I was the best goddamned little teapot in the history of teapots, and everyone loved me!

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Soft Swap by bironic

"What's the Guinness record for number of vampire-human simultaneous orgasms?"

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Something More by jenn

Epilogue: Catch Your Breath. Rodney goes back to find John three years after John left Atlantis.

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Sometimes... Love Just Happens by ru_salki99

With the repeal of DADT, comes some misunderstandings that lead to the breaking up of one couple and the coming together of another.

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Square Peg, Round Hole by sharkie335

When the Ori overrun Earth, some of the SGC evacuate to Atlantis, where they're just not fitting in. This causes serious issues.

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Straight Guys by Cesare (almost_never)

John tips his head back, evading the kiss as smoothly as he can. It ought to be enough. All McKay has to do is take the hint.

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Strength by crystalheaven

Rodney's in the infirmary after a mission gone bad.

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Surrogate by seekergeek

Rodney manages to save the team, but at a terrible cost to himself. When John later stumbles across an Ancient facility, he finds that it can give Rodney what the scientist had given up as a lost cause due to his sacrifice. But the facility is rapidly running out of power and John has to make a snap decision. How far is John willing to go to help a man that he loves far too much for his own good?

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Sweet Blues by Selenic (selenic76)

“John has been acting... suspiciously”

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Sweetheart Dreams by neevebrody

Younger!Rodney joins the Expedition and SGA1 needs a scientist.

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Tables Turned by Tzzzz

"That's it, I am not giving the kangaroos and the bees talk to the two of you. Go traumatize Carson instead!" Prequel: Once There Was a Man Named Holland. Sequel: Not a Henry

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That Will Break You by mz_bstone

Life can break your bones. It can also stitch you back together.

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The .hrngo Files by 9zanite

Ancient devices and Harlequin romances do not mix well.

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The Bribe by Fenchurch

Rodney given to John as a slave and they're on their way to Atlantis.

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The Cave by Sandy

They have to take refuge in a cave. Shower sex in chapter two.

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The Chair by Goddess47

Sitting in the Chair changes more things than John would have thought.

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The Chair by Xanthe

“…are you saying I exist merely to be John Sheppard’s plaything?” The Wraith have returned, the city is on the verge of destruction and Rodney makes a discovery that could change his relationship with Sheppard forever. Meanwhile, Sheppard has made an equally startling discovery of his own.

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The Closet by spacealpha7

"I had totally given you the 'out of limits' sign!"

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The Clothes Make the Man by Rina, Orithain

Rodney is a famous designer that needs a new model. John happens to work in the construcction right outside his window

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The Connection by Keikokin

There's a reason John Sheppard has the ATA gene. And that reason is Jack O'Neill. McKay/Sheppard first time, Jack/Daniel established, Sam/Radek first time, Hammond/Weir implied, implied Jack/John's mother-cheating.

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The Difference Engine by copperbadge

John is a sort-of robot, the result of an experiment led by Rodney.

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The Directory by Tarlan

Being separated from Earth meant making sacrifices, and pooling resources.

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The Ingenious Dr. Rodney McKay of Atlantis by propinquitine

Who would have thought that defeating the Wraith was the least of Rodney's worries?

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The Kids Are Alright by nakedwesley

Big Bang 2008. Forks in the Road: Outcast - John goes back to Earth with Rodney in addition to Ronon.

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The Long Engagement by omg_wtf_yeah

McShep Steampunk!Atlantis AU. John is the leader of the Sheppard Circus Company. Lost in their travels, the troupe happens on the hidden city of Atlantis where McKay is the mistrustful leader of the Lanteans. McKay makes an agreement with the troupe wherein they'll stay on in the city and perform a number of shows. He also asks John for his adopted sister, Jennifer Keller's, hand in marriage. When John refuses to give them his blessing, Rodney proposes that the only way to change his mind is to get to know each other better. But as the two men become close, Rodney begins to question if marrying Jennifer is what he really wants or if what he wants could be something totally unexpected.

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The Neighborly Detective and the Tragic Woobie Widower Verse by Master Elayna

Detective John Sheppard starts his new life in suburbia and becomes steadily captivated by his neighbor, Dr. Rodney McKay, and his son Timothy. This fic started because I wondered why Rodney never got to be the tragic woobie widower in fic.

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The Providence of Stars by melagan

In the summer of 1942, young Dr. Rodney McKay steps off a train, eager to continue his work on the war effort. Nearly a year later, he's running for his life with Captain John Sheppard.

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The Sacred Lerq of Keldra by neevebrody

"I'm dressed in the Ceremonial Fur of the Sacred Lerq."

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The Sacrificial Mage by taste_is_sweet (Leah)

Magic was a zero-sum game. If you didn't sacrifice as much as you were given, you would lose.

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The Secret Society of Cats by kyrieane

Implied Carson/Radek & Elizabeth/Teyla.

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The Sentinel And Guide Of Atlantis by Belladonna

Missing scene: Mt. Rushmore Or Bust. Crossover with The Sentinel. McKay/Sheppard (first time in the missing scene), Jim/Blair, Jack/Daniel, one time Jim/Blair/Daniel.

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The Sentinels of Atlantis by Keira Marcos

While the main focus of this series is the slash pairing of Sheppard/McKay there are secondary het pairings. The pairings that appear in the series: John Sheppard/Rodney McKay, Cameron Mitchell/Vala Mal Doran, Jennifer Keller/Evan Lorne, Teyla Emmagen/Ronon Dex, Sam Carter/Daniel Jackson, Laura Cadman/Aidan Ford, James Stackhouse/Thomas Markham, and Radek Zelenka/David Parrish.
Sentinel John Sheppard thought he’d spend his life unbonded and then he met Dr. Rodney McKay. The mission to Atlantis is their mutual path and they will gather the strongest, brightest, and best for the mission that will take them to another galaxy.

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The Sorcerer King by Tarlan

In a time of magic, when Prince John mounts a rescue to save his family's oldest friend, he discovers more than just an ally in the sorcerer, Rodney McKay, as they seek to overthrow the Wraith Queen of Atlantis.

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The Spare by Rachael Sabotini

As part of peace treaty, empire's royal noble John has to marry science minister Rodney of the Dyzan province

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The Storm Before the Calm by Goddess47

"And we have had absolutely no luck with searching for vague energy sources," John felt obligated to point out. "Wait, we've had lots of luck, all bad."

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The Sun Has Sisters by Lenore

Drugged by alien women. Sheppard/various women, McKay/various women, Sheppard/McKay first time.

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The Sweep of Easy Wind by blackchaps

John is a military prisoner under Colonel Caldwell's command. Controlled by Goa'uld technology, he is little more than a slave. Briefly stationed on Atlantis, his ATA gene is discovered by Rodney, who is a force to be reckoned with.

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The Voodoo That You Do by Merlin7

Rodney pisses off a priestess and gets cursed.

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The World According to Rover by Rina, Orithain

Ancient intelligent carts. Established from part 2 onwards. Mostly McKay/Sheppard, but with other pairings, some of which have episodes and parts dedicated to them: Beckett/Zelenka, Lorne/Chuck, Cadman/O'Neill!Clone, Grodin/OFC (Lindstrom), Bates/Lindstrom, Weir/Paul Davis, implied Jack/Daniel.

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There's No Such Thing as Daniel Jackson by eleveninches

Implied Sheppard/Holland.
Six months after a devastating attack against Earth, Sheppard gets a promotion and a reassignment to Russia, where he encounters evil aliens, Rodney McKay, SG-1, a possible plot against him -- and a series of unexplained visions.

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Things Left Unsaid by Elandria Lore

Because there's a difference between John freaking out and giving him a rough hand job against a wall, and John deep-throating him like he's been waiting for it all his life.

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Thousandmother by Springwoof

A run-in with the Wraith results in the Team being separated and stranded on a cold, harsh planet without help or supplies. As they struggle to survive and find each other, the Team discovers a new alien race and secrets that the Ancients left behind. Including a secret about Ascension that neither the Ancients nor the Ori want anyone to know.
AU sometime after Season 3's Common Ground.

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Three Geeks Walk into a Bar by Orithain, Rina

Also implied Lorne/Parrish and Cadman/Zelenka.

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Three Times Rodney McKay had a Superpower; One Time He Was Just a Hero by sardonicsmiley

What it all adds up to is four times John thought he was going to lose Rodney.

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Through the Noise to the Sea by sherriaisling, sardonicsmiley

John has time to realize that those fingers are webbed and then the involuntary laughter about finding a mermaid interferes with his already questionable grip on breathing, and he passes out.

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To Drive Away the Winter Cold by Tira Nog

Atlantis' first Christmas while separated from Earth.

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To Have & To Hold by ru_salki99

The IOA decide that because Rodney has never been in a successful long term relationship while on Atlantis, that he lacks certain leadership skills. John however, can't bare the thought of Rodney leaving, so comes up with a cunning plan.

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Together by Demand by shinchansgirl

Rodney's condition to work with the SGC again is to have a military husband of his choice.

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Tongues of Men and Angels by Mad Maudlin

When SG-4 is ambushed offworld, an injured Major John Sheppard must put his trust in a Tok'ra agent named McKay to survive. But what secrets is McKay keeping about his mission, the planet, and his own motives for helping John?

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Transcendental by shalott

In less than a day, Rodney had blown past Elizabeth, Colonel Sumner, Colonel Markham, Colonel Escobar, and was rapidly coming up on Colonel Ryers as the absolute worst commanding officer John had ever had to report to.

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Tree Hugger by lavvyan

Greenpeace Activist!Rodney & Lumberjack!John.

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Trinity's Fall by lavvyan

Rodney thinks he's tried hard enough by now.

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Trope by solvent90 (solvent)

So there were these aliens, and they made them do it. And then there was obliviousness.

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True Peace by velocitygrass

Rodney waits and fears that the next letter will notify him of John's death.

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True Self by velocitygrass

Kink Challenge: Marking (Countdown to Stargate Challenge)

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Turn On, Turn Off by spacealpha7

John's frustrated and events conspire to keep him that way.

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Twice Blessed by chelle

McKay/Keller -> McKay/Sheppard/Keller -> McKay/Sheppard
Even when things are peaceful, John can't seem to keep from doing dangerous things.

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Two Simple Rules by thebiggest_lie

Stuck in a cave on a Wraith infested planet with one person injured; there’s nothing left to do but talk.

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Two men and a baby by tex, lamardeuse

The natives give Rodney a gift: a baby clone of himself made with Ancient technology. Sequels: Second Watch, Fatherly Advice, Creation Myth

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Unexpected by ozsaur

John doesn't take Rodney's news very well.

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Unpredictable by Black Goddess (emeraldsword)

In which Rodney keeps getting everyone arrested, Zelenka has cake-related schemes, Teyla has a saying and John has choices to make…

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Until it's All You're Holding on Too by skitz_phenom

After tragedy strikes, Rodney's friends watch as he tries to do everything in his power to find a way to set things right. Sometimes the lengths Rodney McKay would go to on behalf of John Sheppard amazed even him; especially when those lengths included not being able to tell a single person about what he'd done.

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Up Until Now by shaddyr

Up till now, it had been the kind of a day that sucked slime through a swirly straw.

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Waiting for My Real Life to Begin by toomuchplor

Rodney turns 40, dates Jennifer, kisses John and finds an Ancient weapons lab. Sequel: A Month Of

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Walk the line by Soraya

A long walk leads John to a startling revelation

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Want by wolfshark (sharkie)

But at the first touch of Rodney's hands on his naked skin, John completely lost track of what he had been planning.

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War of the Roses by murron

Rodney needs a new room, John's is convenient.

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Warning by Resonant

They get trapped in a dark closet.

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Welcome to Cleveland by margarks

John and Rodney are in Cleveland checking out some strange scanner results. They find Spike and Xander battling a Wraith instead.

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Well, isn't this bloody Fantastic! by Azilver

The team become the Fantastic Four: John = Mr. Fantastic, Rodney = Human Torch, Teyla = Invisible Woman & Ronon = The Thing.

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What I Meant To Say by almostnever (Cesare)

AMTDI, bondage, boots, bottom!John... what more do you need for the holidays? Warning, AMTDI noncon/dubcon issues apply.

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What Kind of Voodoo Do They Teach in Medical School? by rosiepaw

Whatever was going on with Keller was getting weird, too weird for John’s tastes.

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What Might Have Been Series by Keira Marcos

Also past McKay/Quinn, McKay/Mitchell, Sheppard/Holland, Sheppard/Mitchell and present O'Neill/Carter, Dave Sheppard/Keller, Mitchell/OMC, Lam/OMC & OMC/OMC.
What if Rodney didn’t go to Atlantis and the city was lost again? Sheppard turns up as the second command of the SGC under Major General Jack O’Neill and after a year of watching the moody government contractor Dr. Rodney McKay… he decides to make some very personal changes in his life.

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What the doctor would have ordered by shao_fu

Rodney takes Carson's death very hard.

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When in Haldoria by Speranza

John has to pretend to be Rodney's slave.

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When you know you were born to fly by justbreathe80

John is a commercial pilot, Rodney is a difficult passenger.

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Where we are in the universe by solvent90 (solvent)

They all call it that: the gene, like there's only one that really counts, Keller smiling down at him like he's just won some kind of lottery.

"Uh huh," John says. He goes home.

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White Hats Optional by Girlgonemadd

Rodney's protective of those he considers family.

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Wisdom of Youth by morena donn

McKay/Sheppard, Beckett/Ford and unrequited Beckett/McKay.

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Wonderful Life by icantfollow

Rodney is John's guardian angel.

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Words by es_skysurfer

Part 2. Rodney figures out what he really wants in life.

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Worth the wait by velocitygrass

It's been three days. Three days since John overheard Keller breaking up with Rodney.

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You Owe Me, McKay by veritas_st

It takes John completely by surprise though, when Rodney's resolve slips

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You Say it's Your Birthday by Sheppards_girl

McKay/Sheppard (Chapters 1-2), Sheppard/Lorne with McKay watching (Chapter 3), Lorne/Parrish & McKay/Sheppard/Lorne/Parrish (Chapter 4).
Kink: Rape fantasy, chain fuck.

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You're All I Ever Wanted (But I'm Terrified of You) by sabinelagrande

Rodney can't help it if he's become set in his ways. He's had a lot of time to, okay?

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