I should have clarified; my previous post was assuming that we were going to re-create the story. I certainly agree that if that's not happening, the later branches should have priority of being "fixed".
Because discussing the re-creation of the entire mainquest is a bit tiring, I'm just going to address the beginning for now.
The first part of the game had potential. I think the concept of growing up in the vault should be kept. It should also, however, be a bit longer and less linear...