- Asuka never seems to acknowledge Pen-Pen at all - or even to notice him.
- After Shinji kills Kaworu, he's never seen to interact with Pen-Pen again - but sees him during Instrumentality.
- Same for after Misato kills the JSSDF personnel; she clearly remembers the existence of Pen-Pen, but we never see them together again, due to Misato's subsequent death and the end of the world. Akira died moments after Misato's rescue pod sealed, so she can't be said to have seen him die.
This is all clearly leading up to a larger point: we never see someone who has been confirmed to see human death interact with that lovable hot-spring penguin.