I think the best case scenario is still saying they're the same man. Its messy as hell too but it at least makes it so that Superman's situation is the same as everyone else in the verse. So at the very least in that sense its a complimentary mess.
But I'm questioning again whether they're actually done with New 52 Superman for good. Which on one hand would make me happy but on another would make things even more of a mess.
I think we can all agree though that they picked the stupidest means possible to do what they wanted to do here. That they created all this of their own initiative when there was absolutely nothing forcing them to, not even to get to the ends they wanted to get to, speaks volumes about the continued incompetence of the Superman line. Its just currently being masked a little bit by one writer telling some fun stories right now, another writer delivering a nostalgia fest, and the hype of a new era.
December is being touted as being the the month of the first major Rebirth crossover, in this case JL and Suicide Squad. But the term "crossover" should scare any Superman fan. If December ends up being the end of the warming up period of Rebirth, I could easily see them going back to their constant crossover method, in which the Superman line in particular could be going full Berganza again in early 2017.