The Commander prevents all the events of the game via the Mythic Path of the Aeon. Stopping the Worldwound from being created, and erasing himself from existence. This doesn't actually kill him but it does retcon the time-line. He is powerful enough to ensure that at least his friends and lovers remember him. Despite none of the events actually happening.
Afterwards we see that he has ascended to the plane of the rest of the Aeons, and can interrupt the trial where Pharasma dictates what will happen to Areelu's soul.
As a Trickster the The Commander is able to change the nature of the Worldwound, and transforms it into a hub of inter-dimensional trade. By fusing many different planes together. This was supposed to kill him but he rewrites the narrative, and changes it in such a way that he lived through it. Stopping the Worldwound by changing the very nature of it.
The Commander manages to collect everything necessary to achieve ascension not only for themselves but also for their companions and Areelu. Pharasma admits that they're almost as powerful as she is. They take control of Baphomet's and Deskari's planes of existence in the Abyss, and make them their own.
