Alright, so stay with me here. The atmosphere is terrible for an actual universe elimination. All that goofy bullshit, no way, right? But doing an asspull like, 'lol, didn't erase 'em' sucks too. It completely defeats the purpose of killing them. Now that's not exactly out of character for Dragon Ball, but stick with me.
What if everyone who loses is being teleported to a new universe? And Goku's universe is destined to lose, leading them to this super fucking universe that has all these characters to interact with. Sounds pretty fun, yeah?