It's very simple - the game is in development and its narrative is not fully written, as Mr. Palmer said, some paths are still in development.
Most likely, during the development of this update, he decided to change something to make a smooth transition from the CH2 to the CH3. So far he has not allowed himself to be doubted and there is trust in him. It’s just that maybe we don’t know something, maybe he communicates closely with his patrons and we simply don’t have all the information, as we would like to know about such moments!