Hello.
I lead a mutiny on the ship and murdered every magister. I did this by attacking an object near a magister until they attacked me, contrary to directly attacking them which would agro companions against me.
When we reached the scripted section with Windigo, she knocked everyone out.
I killed my unconscious companions for their loot, since I was doing a solo run. Only unexpected consequence so far was that the Void-zerglings didn't attack, like they usually do when you leave companions alive.
Anyway, when I arrived at Fort Joy, my companions were mysteriously resurrected and just standing around like nothing happened.
This seems like an oversight.