Try this post for how to load backup save https://forums.p-insurgence.com/t/saved-in-the-middle-of-a-cutscene-now-my-game-is-frozen-help/6859/3.
Though if you mean you’re stuck on top of jade tower after catching Rayquaza by any chance, then try interacting with the top step.
Entei and Raikou should respawn till you have the dex entry, even if you fainted them.