This is not a "school of thought" but physics. Out of phase subs might result in a smoother response in one room but not in another. It all depends. It depends on the room and the location of subs and listener.
Adjusting level, phase and delay has in impact on the results of the in-room transfer function but setting those values like one would in an anechoic space doesn't automatically provide optimal results in an acoustically small room.