This is an Atlantis-fic set in the world based off of "Final Fantasy; the Spirits Within" movie. It is set in a futuristic Earth, and there are quarantined Colonies instead of countries that are used to protect the remaining humans safe from the spirit-like Phantoms. John Sheppard is a Colonel of the Military, the leader of his band of soldiers Ronon, Teyla, Laura and Lorne. He is sent to another Colony that is filled mainly with scientists, in order to protect their research and them. It is here that he meets Rodney McKay; a scientist who believes he can solve the Earth's problems with the Phantoms, and who holds a secret within himself; he has a mutated strain of a Phantom virus within himself. However,the antagonist, General Koyla will go as far as possible to destroy the Phantoms using the Satelite Cannon; even if it means devastating the Earth in the process. As John and Rodney grow closer, John starts to feel emotions for Rodney that he was trained to ignore. It becomes harder to do so as he spends more time with him, but in the end, will the Phantoms take away Rodney before John has had a chance to really love him? You can have other relationships in the story, but I would like to see a progression between Rodney and John romantically. Bonus points if the story is really long. (Can be broken down into chapters if you want.) If you have no clue about the Final Fantasy story, you can go to Wikipedia, and look up: Final Fantasy: the Spirits Within. It has a but load of info on the gadgets, Phantoms, and anything else you might need from the movie, if you want to add it to the story!!! ;D
This takes place after the events of Doranda. No one could easily forgive McKyy for what he ahas done with the solar system; and as such are making it so hard for him to be on Atlantis. Contemplating leaving for Earth, McKay does one last bit of rsearch with an Ancient device...that sends him to an Alternate Demention where his counterpart died, and all of the people on Atlantis icluding John Sheppard, Teyla, Ronan and Elizabeth are Ancients! Everyone in this Alternate Demension loves him, and everyone is unbelievably nice to one another. Weir, Teyla, and Ronan treats him like true family, and Sheppard, who has feelings for him, starts a relationship with him. All is too good to be true; so what happens when Rodney's own team from his Original Dimension comes for him?