Well, at that point Marie was going to end up with either Sanson or King, and they went the less disturbing route.
As for future Eva isms, the one that stood out most to me was Adam, as well as Neo Atlantis's setup barring a striking resemblance to Seele. Perhaps I was a little vague, but much of what went into Nadia evolved into Evangelion. Red Noa/Blue Noa being the arc's that brought life to Earth share a lot in common with black & white moon eggs of Lilith. Full scale assault of the Nautilus & same on Nerv. Many story element parallels between the shows. But Gargoyle turning out to be human was one of the alltime great plot twists. And it's just too bad Ritsuko couldn't shine as brightly a character as Electra.
I just wish Nadia had gotten the 4 brand new movie remake treatment instead of Eva, as Nadia really could have benefitted from story streamlining & updated animation.