I don't believe they would die either. I'm sure if Hagoromo used it, he would not perish. I think the only reason Nagato did was because he thoroughly exhausted himself controlling all 6 paths of pain for such a prolonged period of time, and this was further added upon by using tremendous techniques like Chibaku Tensei, and Shinra Tensei. And even then, he used it on such a wide scale, bringing back every casualty of the onslaught.
I do however think he should not pervert death anymore, and all those who died should return from whence they came, and all who are dead still dead to remain. I do want some sort of happy ending for Sasuke and the waning Uchiha clan though. I want Naruto to keep his promise to Neji as well. In part 1 he promised Neji that he'd change the way of the Hyuuga clan after he became hokage.
You are right about the new world that is supposed to follow the ending of this war. In that kind of world, people like Sasuke and Obito would have to be accepted I suppose. Not to say they still couldn't implement systems like jail and prison if anyone were to attempt to change the status quo.
But let's use someone who after all this time is still a gargantuan mystery. Orochimaru was the first real antagonist, and he is still the one we know the least about. If it turns out he gets Talk no Jutsu'd, do you think they would allow him to live peacefully among them as well? I personally see him as more of an actual hermit, who lives away from people, but if he survives this war, do you suppose Kishimoto has redemption planned for him too?