Soulmates exist! When it's discovered that John Sheppard has the Ancient gene his twin's DNA is tested and found to carry the Ancient gene as well. Doctor Weir immediately asks John to have his twin fly back home to see if he would be willing to go on the Expadition as well. Randy, to Doc Weir's surprise is John's twin sister who is one of the few people born with two soulmates..

With nearly everyone away on leave, Atlantis is almost destroyed, and it is up to John, Ronon, and Zelenka to save it.

Short little story about the mother of John Sheppard having to leave so her youngest son can fulfill his fate.

"Vegas" Universe: Police Detective John Sheppard joins the Atlantis team, but thinks it's not him they really want, it's the other John, the hero John, Ronon's BFF, McKay's idol. Figures that, the sooner they realize he's not him, the better off they'll all be. No Slash.

Rejected for her good idea seeks vengeance against the Pegasus galaxy and discovered to have immunity against wraith feeding Saphira finds herself among the predators that humans fear. While living among them she soon sees them in an entirely different light. Helping them upgrade their technology is not the only benefit they find. Rating for poly relationship, sex scenes. OC/wraith

After returning to the Pegasus galaxy, John is annoyed to find out that Woolsey wants his team to re-establish contact with the Athosians. Although he is fond of the Athosians he isn't in any hurry to see Teyla reunited with Kanaan. After a frustrating day on New Athos, things go incredibly wrong for John and Teyla when on their way home they come across a strange anomaly.

Tom Giacometti, un jeune wraith élevé par une ancienne marines du SGC est devenu, un peu par hasard, un peu par chance, le nouveau capitaine de l'Utopia, fleuron de la flotte Ouman'shii et précieux vaisseau lanthien capable de traverser le vide intergalactique. Bien que involontairement fondateur des Ouman'shii, il a encore tout à prouver, et tout à découvrir... Mon AU régulier.

Sheppard has to follow orders against his better judgment and worries this could be the end of his time on Atlantis one way or another when the lives of everyone he knows are threatened. Some cameo roles in this story, but it's the usual team and a couple of new OC's that make this a darker tale than usual. COMPLETE

Queen Raynelle Dawn, last of her kind is saved from the Wraith by the Stargate Atlantis team. They quickly come to realize that she may be their greatest weapon against the vampiric species. Both Ronon and Sheppard harbor feelings for the new arrival, but which one will she choose? How will her presence impact Atlantis?

How does a genius cope with the death of the person he loves most in the universe? He gets revenge of course. But what if the man's not dead at all? Slash.

A completely alternate reality where Rodney and Sam have been best friends since childhood and get contracted to the SGC to help Zelenka. Mitchell and Jack have basically swapped roles and ages, the Atlantis expedition goes ahead with a few extra people and John and Rodney rescue each other from their lonely lives. Slash, you have been warned

The trade negotiations had been a success and the locals really knew how to throw a party to cap off the last three days of formalities. The weary team stowed their gear and settled in for the long jumper ride back to Atlantis, chatting amiably and looking forward to the comforts of home. Unprepared for what happened next, it would take triage, teamwork, and tenacity to survive.

When the team detects a Runner's signal broadcasting from Sateda, they go to investigate. There they encounter a ferocious 16-year-old girl who knows everything about Atlantis and just so happens to have Ronon's eyes. Problem is...they've never met her before. This chance meeting will alter Ronon's life forever and change the way he looks at a woman he already knows. [Ronon, OC]

Being in love with your best friend is never easy, particularly when you're both very straight men. So what happens then when your best friend suddenly isn't a man anymore?

Aria Victus had lived her entire life away from any humans. Her only company were the Wraith. Abandoned by her parents on a strange planet, she had survived the wraiths, the cold and her loneliness. One day, three strangers, humans like her, arrived on her planet. They wanted something she possessed and they had something she desired. John Sheppard/OC (slowburn) [Start Season 2]

Caleb Lorne hates that his parents have secrets. He hates that his sister Grace is in on them. He's plagued by nightmares and he can't interpret them. He doesn't know where they come from, but he has a hunch his father, General Lorne, could help him get to the bottom of them. [Sequel to "Between the Lines" and "Interrupted"]

Road rage escalates, Ronon walks into it

Rodney wants John to play his guitar for him while Rodney sings a song. John figures the song is for Jennifer but can't deny his friend's request. Set after the Shrine. Pre slash, nothing explicit.

Créer une nation est une chose, la faire perdurer en est une autre. Pour régner sur un peuple d'humains et de wraiths, réunis par un espoir de survivre, quoi de mieux qu'une reine wraith avec un coeur d'homme ? L'empire Ouman'shii existe, mais il doit encore créer son avenir. Ceci est le récit de l'avènement de son immortelle impératrice, Ilinka.

A alternate version of John Sheppard never heard of the Stargate program. He works for the Bureau of Land Management and lives his life as a wildland firefighter, known as a smoke jumper. Story prompt by kneeddough aka Jill.

In the season four episode, Quarantine, Rodney shows John the engagement ring he has bought for Katie Brown. John looks at the ring and then gives it back to him. But what if he hadn't? What if he refused to give it back? [McShep]

Three things about the show that I didn't think were addressed well and the fallout from them. Throw in some McShep, angst and a cave monster and you've got this story. There is mention of rape and attempted suicide, nothing graphic, but if these trigger you, be wary. And remember, I'm a sucker for a happy ending. Slash. One shot

20 years after the Wraith decimated Earth, the SGC is once again ready to resume the Atlantis Expedition. Top brass wants only one man for the job, unfortunately for them, John Sheppard has been MIA since the end of the War. A slip-up reveals John's current location, but will he be able to forgive the ultimate betrayal and return? AU, rated T for language. Mentions MCDs.

When John loses his memories he might not remember the people around him, but he remembers how he felt about them. He also remembers that someone's missing, but who and where are they?

Major Lorne's team stumbles across an advanced race while exploring a frozen planet, but they soon discover that there are more secrets hiding beneath the ice.