Sorry with how short this chapter is but I need Shinji to die a lot at the beginning to help change his personality and so he can learn the ropes of how this how time loop thing works. Unfortunately don't expect the next chapter for a while
Start
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"Due to Emergency all trains are currently closed. Please head to the closest shelter," repeated the phone in Shinji's hand. Shinji just stood there thinking over all his mother had just said to him. This time he was going to do things differently.
Soon Misato arrived and after a brief exchange of words they were on their way to NERV and then to Unit 01's cage.
"…and I want you to pilot it." Gendo finally said, but Shinji was ready this time.
"NO." Shinji said in a loud strong voice.
"What did you say Third Child?!" Gendo demanded of Shinji
"I said n-n-NO" Shinji repeated slowly breaking under Gendo's gaze.
"Reset Unit 01 for Rei and tell her she has to pilot again." said Gendo, now ignoring Shinji.
"Don't do it Father. You know that won't work." Shinji pleaded
"You have no say here as long as you refuse to pilot. So I suggest you keep quite Third Child."
Just then Rei was wheeled out on a cart. Seeing her like that again after all this time was to much for Shinji, he snapped.
Misato was surprised as Shinji suddenly turned and gave her a quick hug. She was terrified though when Shinji stepped away from their hug and pointed her gun at the commander and a shot rang out. Misato was confused as the Commander looked fine when she heard a body slump to the floor.(1)
"Oh my God, Shinji!" she yelled rushing to him, "someone get a doctor quick!"
"It's ok Misato, I didn't want to work for that bastard anyway, and now I'll be able to try again.
"I didn't realize dyeing was so painful. God it hurts." he paused, drawing in a raspy breath, "Now I know for next time pulling a gun on him is a bad," He laughed as if it was some kind of joke but his laughter quickly turned into a horrible cough.
"Shh don't talk you're just making it worse. Besides you're not making any sense, what do you mean next time?" Misato pleaded with him, but it was to late. Shinji's eyes closed then his breathing slowed to a stop.
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"Due to an emergency all trains are currently…"
end
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Notes:
(1) I don't know where to put it in the story. It was a Section 2 agent who shot Shinji for drawing a weapon on the Commander.
I was worried that Shinji changed to fast in this chapter but I don't think he did. Yes he argued with his father but he had trouble doing it and yes he drew a gun on his father but he didn't shoot him and if Shinji hadn't been shot he still wouldn't have been able to shoot his father.