A.N. "Blah"- Normal speech
'Blah'- Thoughts
Blah>- Radio, comm, ect

Neon Genesis Evangelion

Man's greatest enemy is…

Chapter 3: Uncovering the truth
Kozo Fuyutsuki looked out of the window of the VTOL at the view of Tokyo 3, he and the Commander had returned from their escapade to the South Pole early and he was tired, normally he'd try and sleep on long flights but after what he'd seen he figured it would be awhile before he'd get a proper nights sleep. Looking over to his right he saw his former student, superior officer and co conspirator Gendo Ikari in his typical pose he remembered hearing a joke he'd overheard from two of the techs that Gendo had had the pose trademarked and he got one American dollar every time anyone used it, brushing the thought aside as the air craft prepared to land.

Asuka sat at the table opposite Misato who'd been silent ever since they'd left NERV. Though she didn't show it she'd been confused ever since the sync test were cancelled and she and Rei had been hold up in the locker room under close surveillance, she'd asked the Section two agents several times what was going on and each time they'd told her that they weren't at liberty to answer.

Sometime later Misato arrived and told her that they were leaving Asuka was about ask her what was going on when she noticed that Misato's eyes were red and swollen as if she'd been crying so she decided that now wasn't the best time. Once they were at the car she'd asked where Shinji was but had received no answer she would have pressed the issue but it looked as if Misato would have broke down on her so she let it pass. That had been a few hours ago and Shinji hadn't retuned home Asuka thought now might be a good time to bring the subject up again

"Hey Misato where's baka-Shinji you didn't wait for him back at HQ, he staying with one of his stooge friends or what?" Misato took some deep breaths as she tied to compose herself

"Asuka there was an incident at NERV" she said though she was putting a strong front Asuka could hear her voice shaking slightly "Kaji radioed Ritsuko after the blackout, we went there and…Shinji was in his office lying in a pool of his own blood, he was also pretty beat up. He's in the medical facility, the doctors managed to get him stabilized but he's in a coma and he doctors aren't sure if he'll ever wake up again."

Asuka was stunned, slowly she rose from the table and headed for her room, Misato's word kept swimming about her head as she sat down on the bed. She very had very mixed feelings when it came to young Ikari, he'd showed her kindness and patience ever since her arrival and treated her like the fragile object that deep down she really was, he'd rescued her from the volcano after she'd defeated eight Angel and later learned he'd disobeying orders to do so even though she'd hurt him on numerous occasions but that didn't mean she wanted anything like this to happen to him. If anyone had been around they would have seen the single tear rolling down her cheek

"Stupid Shinji" she said as she wiped the tear away "why did this have this happen to you!".

Across town Rei Ayanami was lying on her bed, not long ago Dr Akagi had informed her of what had happened to pilot Ikari before Section 2 security had dropped her off at her apartment, to toughs around her Rei Ayanami was an emotionless doll but the reality was that she was just very good at hiding her emotions and right now she was feeling quiet a few of them anger, sadness, confusion

"What are these feelings?" she asked herself "Why do I feel this way?" getting up she went to the bathroom ran some cold water onto her hands before applying it to her face, she then stared at her reflection in the mirror

"I hope that Ikari is alright.".

Things were unnaturally tense in the command centre the next morning, Misato had received words of condolence from Maya, Hyuga and Aoba who'd had been informed about Shinji's condition which had been followed by a word from Ritsuko who had checked on Shinji this morning but there had been no change in his condition. No one had spoke since then and they went about their work in silence so everyone got a shock when Commander Ikari and Sub-commander Fuyutsuki entered the room as they'd expected them to arrive back from their trip later that day

"Status report" Gendo said in an unfriendly tone "I asked for a status report." he said when he was meet an empty silence

"Everything's operating efficiently." Misato reported, "There was a minor black out " 'No point denying what happened, he's probably found out about it already'

"And the status of the Evangelions and their pilots, I believe there was a synchronization test yesterday?"

"The test was cancelled. We thought it best under the circumstances…"

"And what are the status of the pilots?" "Rei and Asuka are currently at school."
"And the pilot of Unit 01?" Misato looked at the commander feeling disgusted

'That bastard, even after all this time he still won't call his son by his name'

"I'm afraid that Shinji won't be piloting any time soon." turning to the door they saw that Kaji had appeared holding a piece of paper in his left hand

"And why would that be!" the Commander said in his usual cold tone he turned to look at Misato and the rest of the bridge staff who were all in a guilty silence.

For then next hour Gendo Ikari and Kozo Fuyutsuki listened to Misato and Ritsuko's account of Shinji's encounter yesterday, as predicted Gendo's face remained ridged as stone whilst Fuyutsuki who remained as neutral as usual let out a sigh of regret that Misato found a little comforting

"I see" the Commander said once they were finished "and I why wasn't I informed about this?"

"We weren't expecting you to return until later today." Ritsuko said trying not to let her voice shake, just thinking that someone would intentionally do what happened to Shinji made sick to her stomach "We also hoped we'd have more information to present to you."

"I see." he turning to face Kaji "Why are you here?" "To give you this. I figured you'd want this." He handed Gendo the piece of paper that had red stains on it

"What are these red marks?" Gendo asked

"That would be blood. I found that note on your son's body." Kaji replied, "You probably already know who it's from."

"What you removed evidence from a crime scene!" Misato said, "That note could have fingerprints or have traces of DNA that could identify the culprit!"

"First who ever did this were professional, they would have taken measures not to leave anything that could be traced to them." Kaji said never taking his eyes off Ikari "Second this is for the Commanders eyes only and lastly you watch way too many cop shows."

Gendo ignored the disagreement between the two former loves as he read the letter

"What is the third child's status?" he asked once he'd finished

"He's currently in the medical unit in a coma, the doctors aren't sure if he's ever going to wake up though." Misato said staring at her shoes

"I see." Gendo said returning his gaze at Kaji.

Ritsuko watched the staring contest between Gendo and Kaji and found it slightly worrying, normally her old friends face was full of good humour and a kind of schoolboy mischievous but right now his face was twisted into a look of loathing and his eyes were cold, Gendo gaze suddenly turned from the man in front of him and stared at his shoes removed his glasses and cleaned a speak of dirt off them but for an instant she was sure she saw a concerned look on his face but suddenly he replaced his glasses and it vanished, maybe it had been a trick of the light but for an instant she was sure she'd seen the Commander's mask slip. Gendo gave Kaji one last look before making his way to the door with Fuyutsuki in tow, before exiting they stopped

"Mr Kaji I'm putting you in charge of this investigation, bring in anyone you need to help in your investigation, I want any and all evidence presented to me as soon as it's discovered. Dr Akagi I you to find out what the tablets that the third child regurgitated are then I want you to reconfigure Unit 01's system for Rei. I want security on the first and second child doubled, we can not afford to lose another pilot."

"And what about Shinji?" Misato asked trying to hide her disgust for the man but not trying very hard

"Notify the Marduk institute" he replied, "tell them to locate the Fourth child." the two men then left leaving the rest of them in a heavy silence, after what seemed like an eternity Kaji turned to Maya

"Ok as the commander said I'm now in charge of the investigation, I need a complete search of the Magi's system logs." "You think the black out and Shinji's attack are linked." Misato asked "That makes sense, you want to disable an important part NERV's defences but you know it's impossible with allthe security, what do you do?"

"Disable the security network." Aoba said

"Yes but the Magi isn't something just anybody get into." Maya spoke up "who ever did this must have extensive knowledge of the Magi and it's operating systems."

"But that would mean that it was someone who works here did this!" Misato stated, "You think NERV's been infiltrated."

"It wouldn't surprise me, our fearless leader isn't the most likeable person around" Hyuga pointed out

"Alright we need a complete search of the Magi, try to find if an irregularity was uploaded at any time yesterday" Kaji said as he turned to leave "I'm going to check the surveillance footage, try to find Shinji's last movements before the black out."

He was about to leave when Misato grabbed his arm turning to face her he saw her eyes were filled with hate and anger

"I want in Kaji" she said in a cold tone "I want to find the sonva bitch who did this and put a bullet in his head for what he did to Shinji."

"No." he simply replied Misato looked as if she'd been slapped

"What?"

"I can't let you Misato, you're just going to have to trust me for this."

"You've got to let me in on this, I need to look in to the eyes of the person who'd hurt an innocent boy like that."

"So you can what. Dish out judgement?" there was along pause between the two of them looking into each other's eyes

"I'll find him Misato." Kaji said, "If you never believe anything I say believe this. I'll find who did this and make him regret it, I swear it on Shinji's life."

The two of them stared at each other for a few moments longer before Misato nodded her head, there was nothing she could do for Shinji except hope and pray he came through this and she had other concerns right now if someone was targeting the Eva pilots then even with extra security Asuka and Rei might not be safe, she was going to have to trust her former lover on this.

Releasing his arm Kaji exited the room and the door closed behind him, he paused

'Hang in there kiddo, I'll kind the sonva bitch who did this to you. I promise.'


A.N. First thing I want to do is apologize forhow longit to took to write this chapter.The original version got erased and had to start from scratch, I hope it was worth the wait. Secondly I'm still not too sure about the title chapter so if any ones got a better one send it to me. Please please review because all comments are welcome. I don't own Eva, you might already know this but I'd thought I'd remind you just in case you forgot. I try and get chapter 4 uploaded quicker promise. Peace.