Heavy reality altering is disabled. Halo, Warhammer, Marvel, Dr Who, Star Trek, and DC can not just straight up delete the opposing team. Reality altering is allowed, just nerfed.
So, who wins?
Personally, I'm going to go out and say it ends with the Precursors (Team 1, Halo) dueling the Time Lords (Team 2, Dr Who.)
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Team two obviously. They have Darkseid and The anti-monitor. And the black lantern.