The manga is nice so far, but it seems to be less subtle than the anime.
Misato's thoughts on Shinji are very clearly shown in the manga, unlike in the anime, where her feelings are up to the viewer's interpretation.
She never explicitly told Shinji to sacrifice himself for humanity or anything like that. It's not entirely clear how much anime Misato sympathized with him or how much she was manipulating him for her own purposes. Manga Misato just directly tells him to sacrifice himself for humanity.