I wonder what situation could have possibly lead to this

Zekeltarfos said:
They were both expecting Shinji but that sneaky bastard set them up.

They were planning on raping him when he came through the door to deliver some school work. But Rei came instead.

It's just one of those strange NERV training programs that require them to have their clothes removed.

Shinji and Kaworu are working to dispel those rumors about them while also fulfilling the expectations of those perverted fanfiction writers.

Anonymous said:
It's just one of those strange NERV training programs that require them to have their clothes removed.

As does every other NERV training program ^_~ lol

They did it and felt ashamed afterwards

They stop doing the nasty cause kaori didn't have a condom

no, he discovers that he is gay and she is lesbian n_n

shinji promised them both sex and told them to undress and wait for him, but he got scared and ran away.

MoRpH said:
no, he discovers that he is gay and she is lesbian n_n

Ha, true so true.

Anonymous said:
It's just one of those strange NERV training programs that require them to have their clothes removed.

This is also true. Good hypothesis('s?) guys!

modmatarael said:
but he got scared and ran away.

hemustn'trunaway, hemustn'trunaway, hemustn'trunAWAY...
*sees Kaworu's massive package*
*gets the fuck outta Dodge*