Ending? I need clarity

So finally finished stellar played and I got the “make new memories” ending. I’m having a hard time trying to figure out a few things so Adam was the only human/Naytiba left or are the people with Zion..Also humans? And were the Natytibas once humans? Also, why did EVE attack her own comrades? Why do the people of Xion refer to her as Angel? Isnt lily a robot herself? Lol i’m so confused. Either way, this was a badass game..