They had never laid any hints that Lois and Jon were being erased or otherwise removed from the books long-term. Fans were just jumping the gun. I blame DC for a lot but I don't blame them for fan paranoia. And that's really all the ideas about Jon and Lois being killed off or something were born from. It came from the speculation of fans, that went viral via fans, not from DC or Bendis themselves.
I also don't see the dread in Supergirl losing a title for a while. Its not the first time its happened. Lots of characters lose solo titles for a while, play a role elsewhere, then get a title back at a later date. Look at Catwoman. She'll get a solo again at some point, this is nothing out of sorts.
I don't see anything happening in the lead-up that has proven "haters" correct. But I have seen a lot of rampant paranoia. And I'm not saying that as an insult or as a judgment. Things make me paranoid too. But there's a difference between being scared over things actually said and advertised, and just letting your imagination get away with you.