Chapter 3: The End Of The Beginning

He face palmed. 'Kensuke's not going to let me live this down if he finds out.'

Then it came: the Angels attack.

The Angel shot out one of its arm and lifted Unit 01 off the ground and held it against a nearby building, before something came part of the way out of the Angels hand, and then rushed forward, hitting the Evangelion in the head.

Shinji attempted to make the Eva move, but he hadn't had any training for this, so it took him a while to get it moving, though it was too late by the time he had gotten Unit 01 to move.

He was feeling a bit groggy and his head had been knocked against the chair that he was sitting in. As he passed out, he heard the technicians say something about 'the braincase has cracked' and then he slipped into unconsciousness. Unit 01 was still assaulted by the hand-ram the Angel had, to the point that the armor on the head had cracked and blood sprayed forward onto the Angel.

Suddenly, Unit 01 reactivated and grabbed the Angel's arm that was holding onto unit 01's head, and it broke the arm before standing up and then running forward and charging at the suddenly running Angel. Unit 01 lowered it head, piercing the back of the Angel with its horn and allowed itself to get covered with the Angel's blood.

The Eva then started to tear the Angel to pieces after it released it from its horn, though as a last act, the Angel had chosen to self-destruct. The Eva was knocked into a few buildings that either didn't make it in to the Geofront in time, or wasn't important enough to have the ability to lower themselves, and the Eva shut down, knowing that it's pilot was safe and the enemy destroyed.

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Shinji opened his eyes to see nothing but white. Once his eyes focused a bit, he was able to make out that he was in a hospital of some sort, though it was not a hospital that he was familiar with.

'Another unfamiliar ceiling' he thought to himself. He slowly sat up to see a small, yet tidy room that was encompassed mostly by white and medical machines that were hooked up to him. He looked to the window and found that it was about mid-day, meaning that he had probably been out no longer than a whole day.

The door opened to reveal the person that he was sent there to kill: Ritsuko Akagi. He knew that the moment he saw her that he would be struggling with himself to actually do his job. There was a reason that assassins weren't supposed to allow themselves to get attached, in any way, and right now was a prime example of why.

"Good to see that you're awake." The doctor said.

"How long was I out?" he asked as she looked at the instruments that were attached to him and scribbled a few things on a clipboard that he hadn't noticed her carry in.

"About half a day, so you didn't miss much." She said, finally putting down the clipboard. "And before you ask, the Angel was destroyed."

The relief must have shown on his face as she asked, "So, where are you staying?"

"Well, I was going to go with standard NERV quarters. Why?" he asked, truly curious as to why his target would ask him something like that.

She fumbled with her thoughts for moment. 'Why did I ask him that?' she asked herself, though the answer was all to clear; she could feel something coming off of him, like an aura of sorts, that exuded mystery, and she wanted to know why someone that young would have an aura like that.

However, something else was present in her mind, something other than logic, the part that she should have been thinking with. She refused to listen to her woman side, as Shinji was a teenager, so she chalked it up to being that living alone had finally gotten to her, and some form of human company would be better than nothing.

She was brought back from her thoughts by Shinji as he waved a hand in front of her face and asking if she was okay.

"Huh? Yeah, I'm okay. Anyway, I was going to ask if you would like to stay with me at my apartment?" she asked, seemingly out of nowhere.

"Sure, as long as the higher ups don't have any problems with it." He said, glad that the perfect opportunity had been granted to him, not that he would be able to take it right away, as he wanted to at least have a plan of some sort set up so that he wouldn't look like he had done it, and he would want some sort of cover in case he failed. There was always Kensuke, though he was more suited to spying than assassinations.

Ritsuko was about to leave when she turned around and said/asked, "I'll go talk to the higher ups and then you can come back to my place, okay?" his only response was nod before he lay back down. She turned back towards the door, exiting it without a further word.

'Man, this is going to be one long assignment. Really long.' He thought as he closed his eyes to get some more sleep in before he went with the blonde doctor.

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About two hours later, He was stepping inside of Ritsuko's apartment, thinking the words 'This is my 'home' now'. They had brought some groceries with them, as Ritsuko had needed some more food to accommodate for her new roommate. As Shinji stepped inside, he was met by an orange and white striped cat that was sitting in front of him, staring at him until it came forward and sniffed him.

"Well, hello there." Shinji said, smiling at the little animal before going into the kitchen area of the two bedroom apartment and putting down the groceries before noticing that the cat had followed him. He bent down and picked up the cat and started to pet it, eventually making it purr.

"His name's Chester" Akagi said once she was done putting the groceries away. Shinji's stomach then made a rather loud sound that meant that he was hungry. Akagi then set to work on their late lunch, as neither of them had eaten anything for a while.

Shinji watched as she made their lunch, as he had never really gotten to use a kitchen much in his line of work. Though, something was on his mind as she cooked; 'What is it that I feel? This is definitely a strange thing to be experiencing. I just hope that it doesn't turn into what I think it might turn into…'

The cat eventually jumped from his arms to the ground when the doctor came to the couch to tell him that dinner was ready. As he went to the table, he noticed that she had a small smile on her face, though it was barely there, as if she had somehow won something that she had worked for years to achieve.

He decided to pay it no further thought, though made a point to keep it in mind for later. The two of them sat down to eat and ate in relative silence, though not the uncomfortable kind, as both had thoughts on the mind.

'Hmm… how should I kill her? If I do it outright, it'll arouse suspicion, and if I don't take out Gendo, then the tyranny won't end either. For now, I'll just have to ride things out.'

'There's something strange about this boy… why did I even take him in? Am I that desperate, that I would take a fourteen year old's virginity?' However, they had both somehow wound up staring at each other, and once they noticed, they quickly turned their heads away from each other.

'Crap.' Thought Shinji. 'This is going to be a very tough mission.'

'Great, just great. I'm likely a lolicon now. Just great, Ritsuko old girl.'

They finished the meal quickly from there and wished each other good night before heading off to their respective bedrooms. Shinji just lay on his bed thinking for a while, wondering what to do about the situation, though he would have to contact his superiors at some point soon, though likely through Kensuke, as he was now under watch at almost all times, so if he did anything suspicious, then it would be reported to his father.

'Hmm… I can't kill her yet. At least, not until I know I can't get caught… Hmm… I'll have to discuss this with Kensuke as well.' He then got up and changed his clothing into something more appropriate for sleep than the usual white shirt and black slacks that he had been wearing and would continue to wear for when he had to go to school.

He lay down and was about to attempt to sleep when a stray thought entered his mind; 'Another unfamiliar ceiling.'

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AN: Hope you guys like it, and yes I know how long it's been since I updated. I am deeply sorry for how long it's been, and I'd explain, but I'd rather not bore you with excuses. There will be more chapters yet, so don't worry, there's plenty more where this story came from.