Basically that universe is an almost identical/parallel universe, everything is the same in that universe as there is in the main universe, except that there is an alternative ending in that there child survives, and the goblin does die, apart from that it is the same universe, so if his main time line changed the so would the alternative one, since the magic erased there child, that sequence of events are void.
The spider-girl timeline is set in the future so the events of that universe are different to ones in this, in that universe MJ and Pete are married...have a daughter...in the 616 universe they are seperated and have no daughter so the spider-girl universe is still an alternate universe to the 616 universe even though it's changed
Well that's the thing everyone who knows Spidey is affected by this, I mean he is no longer a member of the new avengers, wait does Eddie remember Peter is Spider-Man, some stupid story quite a while back seemed to make him forget, only he and GG should not Peter is SM, and I hope the Spider-Sense, the tracers and the Spider-Signal return as well as the under arm webbing.