Disclaimer: I don't own anything of Stargate Atlantis. Except this plot. .

Name: Shadow covered Atlantis

Pairing: have not decided. I'm leaning towards either Rodney/Sheppard or Ronon/Rodney/Sheppard. Either way John will be bottom. So no flames you all have been warned.

Spoilers: haven't clues.

I hope you will like it, wouldn't get out of my head for a week so. Warning not very good at stories but trying my best.

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Sweat poured down his face as he ran down the long dark corridor. His sides cramped and legs felt like rubber, raw lungs filling rapidly with oxygen. Teyla, by his side, was in a similar state, sweat dripping off her face soaking her clothes closest to her head.

She kept looking behind them with her P-90 ready to shoot anything in sight. They had lost Ronon somewhere on the way from the stairs. He hoped his big friend was alright, but knowing him he had nothing to worry about…much.

Pain shot through him from his midsection causing it to burn and stumble. "I need to stop now!" Rodney collapsed putting his forehead on the cold floor seeking to expel excess heat from his over heated body. The floor was mercifully cold and the compulsion to put his whole body down and cool off was strong but for the sake of his life he wouldn't dare.

He did not know how long they had been running nor how long since they had come home from their latest mission. P4X-666

Was freaking creepy with no since of life except for very exotic plants and was very glad to be leaving it behind so neither he nor the others sensed something wrong. Him most of all.

He should have freaking seen it, they all should have.

His heart leaped almost out of his mouth when he heard a clatter behind him, but did not have the chance to swallow it down before Teyla grabbed him, shoving them both into a nearby hiding spot just big enough for the two of them. Well just barely.

Rodney clamped his hands to his mouth tightly so when sound came out it was greatly muffled. More thankful than annoyed when his female friend's hand joined in.

They heard footsteps and clanking metal moments before Sheppard was in sight. He looked like he was the only one left in a full scale war with nothing left to lose. He was carrying so much guns and ammo plus explosives they wondered how he's not dragging his feet, or crawling.

"Oh shit!" Rodney's mind screamed. Cold fear gripped him hard, wide eyes watching the man as he walked by.

He knew his friend was not easily fooled and was well trained for finding people and eliminating them, he felt for certain they would be found within moments. Sheppard walked slowly, menacingly down the corridor, looking for more of the people that inhabited Atlantis.

Luck, it seemed, was on their side when Sheppard didn't even pause and walked out of sight. Teyla waited for a few minutes until the footsteps were gone before she, with Rodney, ran the way they had come from.

"We need to get to your lab," Teyla whispered.

"Yeah well it was the other way. No way in hell I'm going down there." Rodney wheezed.

"Are you alright Rodney?" she asked, looking at her friend almost about to collapse to the floor and pass out.

"Does it look like it!" he snapped heatedly. She gave him the eyebrow she always gives when she was annoyed or confused. Normally he wouldn't care but he couldn't help but cringe at his tone he gave her. She didn't deserve his angry words, not at this time.

He ran his shaky hands over his face, hours ago he had witnessed his best friend murder several military personnel. MURDER! And they had not even provoked him.

After that he ran as fast as he could from the slaughter but the image was forever imprinted in his mind, nightmare material for months.

After getting up, sufficiently cooled off, they slowly made there way to one of the naquada generators. They were supposed to get his computer first but considering they had to backtrack, they had to go a little bit ahead of their plan. Rodney quickly turned it off, taking the top piece. The same piece Sheppard once took when Kolya tried to take over Atlantis. Tearing up at the memory, he put it in his military vest and continued on.

Thankfully that was the last one, dr. weir and her group had gotten the 3 generators off a while ago which is why they hadn't taken the transporter.

Everything was in total darkness now, except for the lights that did not need any type of power like a generator or a ZPM.

Now they had to find another way to Rodney's lab, avoiding Sheppard on the way so that he can get his computer to manually trap the colonel in a safe place and sedate him till he's blue in the face. It was either that or kill him. No one was even going there.

Suddenly a hand firmly grabbed McKay's shoulder and another to his mouth when he screamed.

"Shut it McKay." a gruff voice whispered in his ear. Rodney visibly relaxed, relieved beyond belief.

"Ronon where the hell have you been?" he snapped," and were you trying to put me in an early grave?"

Both ignored that question and opted to glaring at him to keep his voice down," were did you go Ronon?" Teyla asked more kindly then Rodney did. Though to give him credit she wasn't startled out of her mind.

"Went ahead to cut off Sheppard." the Satedan explained looking down to his bleeding arm," didn't work out like I had planned. Couldn't get near him. Too many guns."

Teyla nodded in understanding having seen the colonel not to long ago.

"Do you have your computer?" the big man asked. Rodney and Teyla shook there heads no. Giving out a sigh he led them to a safe route to the lab. They barely made any distance when they heard screaming and heavy gunfire. From the sound of it, was one sided. All too soon it stopped. An ice cold chill ran down the scientists back, spreading throughout his body leaving him a cold paralyzed statue. Ronon damn near had to carry him all the way there.

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Hope it's a good beginning. ^.^