I see nothing wrong with companions having an anchoring point in the player-verse which we can then call a 'canonical' or developer's iteration of the story. It does not in the slightest contradict their philosophy of 'play however you like' because it will be a an additional option to play on top of the existing freedom, and the key word here is option. Things like this only keep the universe coherency and eradicate the need for debate like the one we are having here and in the TDU thread I've recently created.
I said (or heavily implied) earlier that if Larian wanted to disallow something from happening in the game for the sake of story coherency, they could simply do so. E.g., if they don't want me to make Wyll into a paladin, then they can keep it from happening.
