So you setup your subs with minidsp/rew then ran Audyssey? Audyssey set your mains not to use bass managements (which isn't Audyssey, that's the avr manufacturer that does that) and you then changed to use bass management and set xover of 80hz. Then toggling between Audyssey on and off you find little under 25hz in measuring when on, and improved low end with it off? I also find that odd but want to make sure I understand your steps....