I would disagree that morality was bad in NV mostly since I can't even remember having an overall karma level in it. Most of the time the only thing that affected you was how friendly the various factions were and whether or not you did things to piss them off was generally handled quite well.
And I don't think Tenpenny Tower was all that great honestly. Sure there's a bit of a twist if you help them move in peacefully, but that really doesn't make your choices morally ambiguous. It just means things still end badly for one group even if you do the non-psychopathic thing.