Can we get choices that really matter and have a effect?

[Iscah]

um first off non of them were villians due to the fact what they were doing was for greater good [...]

Quite simply, the problem here is that your personal sense of morality is so at odds with the writers of this story (if not society at large) that you are never going to find enjoyment in how the plot is resolved. Even if they gave you "choices", I doubt they would give you the sort of outcomes you seem to be seeking.