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Starrystars'Unlocked: Don't worry, this isn't completely copied. The first few eps will be similar with slight differences, but this will be a AU. Also, I do have permission from Aer'Ki Jyr.

StargateFFWriter: You are right, changes will begin appearing I promise.

Thunder18: Glad you enjoyed it

Seshikago: Yes, yes I did.

Douchiesnackes: It does, doesn't it….have faith in me.

Chapter 2

"You've really done it this time, Colonel." Landry said from outside of Atlantis brig.

"Done what, exactly?" Sheppard asked sarcastically.

"Done what? Well, let's start with the obvious. Attempting to steal from the I.O.A. and SGC." Landry replied.

"Atlantis doesn't belong to Earth of the SGC. It belongs in Pegasus." Sheppard argued.

"Even if that's true, I was referring to the weapons and supplies you've been stockpiling for your return to Pegasus." Landry said smugly.

"How did you know?" John asked confused.

"I'll give Woolsey credit, he knows how to keep a track on supplies." Landry admitted.

"I should have known." Sheppard nodded from within his cell.

"Then, there's trying to steal Atlantis. We bought it back from Pegasus, we've lost lives defending it and we are damn well going to reek the benefits." Landry argued.

"So we just turn tail and run because the Wraith are proving more resilient than the Goa'uld did?" Sheppard argued loudly. Landry seemed to agree, but didn't say anything.

"The purpose of the Atlantis Expedition was to recover Ancient technologies from Pegasus and return them to Earth. It was to find technology capable of defending Earth from any threat. It was not, however, a mission to fight the Ancients war with the Wraith. The I.O.A. feels that even with the allies you've made in Pegasus, it still doesn't justify returning Atlantis or continuing the fight on their behalf. And trying to hijack the city for that purpose, was obviously futile." Landry explained looking Sheppard directly in the eye.

"We have allies to protect! They need our help! The Wraith will eventually come after us!" Sheppard shouted in objection.

"The I.O.A. doesn't agree with you. Pegasus was fine before we arrived, Pegasus will be fine without us. Who knows, maybe the Wraith will go back into hibernation." Landry replied.

"What happens if they should show up?" Sheppard inquired.

"Not that it's be any of you business, but with Atlantis fully powered, I've been reassured that we'll be able to take on the whole Wraith armada." Landry answered.

"So let me get this straight, I'm being punished for doing the honourable thing?" Sheppard questioned.

"When it was against standing orders, then yes. The I.O.A. has had it with your independent streak." Landry replied.

"Since when does the I.O.A. tell the US Air Force what to do?" John asked.

"They don't, but the President happens to agree with them and so do I." Hank answered.

"So what does this mean for me?" Sheppard asked the General.

"Most likely, life imprisonment. Or retirement off world. Your choice." Landry informed him.

"The second option sounds nice." Sheppard admitted.

"Don't think it will. The off world retirement doesn't include returning to Pegasus." Landry blocked Sheppard and his train of thought.

"Fine, but can't we arrange the evacuation of the human population from Pegasus?" Sheppard suggested.

"There at least I can sympathize. While I don't expect that we could evacuate an entire galaxy, we could at least provide refuge for some of the Humans allies. I don't like turning our backs on our allies any more than you do, Colonel, but the I.O.A. is ultimately the one in charge. And like it or not, we have to follow orders." Landry replied after a minute of thought.

"Even if they're bad orders?" John asked.

"Even if they're bad ones, Colonel. You've had too much leniency in Pegasus for your own good. Being a galaxy away from command influence probably didn't help matters any. I'll be sure to bring that point up at your court-martial," Landry said as he turned to leave.

"That's it? You just popped in to chat?" Sheppard asked.

"Believe it or not, Colonel, I have another soldier to discipline. Although I doubt he'll live out the month. He's probably better off, given the circumstances." Hank admitted.

"What happened? Did Ronan do something?" Sheppard asked.

"No, Colonel. He's one of mine. Seems he found an Ancient Repository and decided to use it on himself." Landry explained.

"What's an Ancient Repository?" John asked somewhat confused.

"General O'Neill refers to it as a 'head sucker'. Thing is it nearly killed him…twice. The Asgard saved his life both times, but Captain Stevenson won't have that luxury." Landry looked genuinely disappointed.

"Did he know it'd kill him?" Sheppard asked.

"Probably, only he knows for sure, and right now he's in a coma in the infirmary. Seems he disobeyed orders and didn't report it in. His team leader found him unconscious beneath the device."" Landry offered.

"How do you know he did it on purpose?" Sheppard asked.

"Standing up for another rogue, how touching." Landry said sarcastically.

"We found his hat several meters away from the device, along with some very distinctive footprints. He didn't just walk by and it grabbed him. Apparently he took his hat off before walking straight up to it and sticking his head in. Either way I'll find out for sure when he wakes up. I've got Dr. Jackson standing by to translate." Landry explained.

"Translate?" Sheppard asked, confused.

"Seems the Repository rewrites your brain with Ancient knowledge. General O'Neill eventually lost the ability to speak English." Landry approached the rooms door and it opened to reveal two Airmen guarding the room.

"If I were you I'd start planning your defence. Your designated council will be here in the next hour, but you're going to need as much prep time as you can get. If I weren't ticked with you I'd wish you luck, even though I know it wouldn't do you any good. You're going to be staring at the inside of a cell for most, if not all of your remaining life. That's if they don't grant you off world retirement." Landry guessed.

Landry exited the room and the door closed itself behind him, leaving Sheppard sitting alone behind in the sparse cell.

"Do we get any bathroom breaks? There's no toilet in here!" Sheppard shouted trying to gain someone's attention as there was no one in the area surrounding the cell.