Is it just me or was there a massive cut and rewrite of the Cosmic Areas?
It 100% felt like the story was leading up to Apollomon murdering Dianamon in a fit of rage and (you) having to hop back in time to mediate better a second time.
Instead, Apollomon flies into a fit of rage and barrels towards Dianamon's throne, leaving a trail of bodies in the wake of his destruction, then he gets even more angry at her during their confrontation and... they fight for a bit and realize the error of their ways and cry in each other's arms and make up and everything is hunky dory.
(you) accidentally trigger what seems like the worst case scenario by confronting Apollomon and giving him the impetus to steel his will and lay judgment on Dianamon once and for all but lucky for you that he manages to convince himself out of that path of action at the last moment, huh?