It could be that the Island wanted Rousseau/Alex alive until a certain
point, until they've done what they need to do, like Michael. And it could definitely be that the Island is evil, especially since it (apparently) ordered the killing of an infant. And then there's Charlotte saying "this place is death." Maybe the Island tempts people and offers miracles to lure them, but is evil for the very reason that it plays fate, maybe even plays God (bringing people back to life)?
Speaking of the man behind the curtain (which had been referenced in Season 2, when Ben shows up as Henry Gale) I'm sure someone already suggested this, but what if Richard is Jacob? If the Island speaks through Jacob, Jacob speaks through Richard, so maybe the Island is simply speaking through Richard, and "Jacob" is just to keep his cover, keep him safe?