Whether they realise this or not should technically be translated into either not doing One More Day or even just letting Dan Slott take advantage of the plot thread he left behind when the Regent invaded the main universe to restore it. But they still don't do it. The most that has changed is Mary Jane and Peter now being on better terms but that's as far as it could go at this point anyway. I'm under the impression that Marvel allows these alternate universe stories where the marriage was never undone to exist so that they can keep the hardcore marriage fans buying their comics. It might be them trying to have their cake and eat it too.