just finished the game yesterday.

Spoiler alert : the mind blowing moment at the end when you open that door and see the baby in the bed. Then you understand the whole "bring us the girl and wipe away the debt".

Otherwise the multiple Elizabeth reminds me of the 3 copies of Rei ; the same for the multiple universe and in eva when you see what could have been the world in a different situation (if Shinji never piloted an eva for example)