Yes, bass mgmt. does affect the pre-outs as well. FYI, FWIW the mains X-over to the powered woofer at 120Hz. Do you know which way the bass drivers are pointed, inward or outward? Positioning them so that they fire inward is preferred for tighter bass response. As Def Tech recommends, hook them up using the high-level connections only. I would prefer a small/60Hz setting. Another thing you need to do, if you haven’t done so already, is to balance the output of the woofer with the upper section using the gain control of the woofer amp. I think it was already suggested, but I’ll say it again, set up the mains first to your liking set as large (play some of your deep organ music to see what they’re capable of), then incorporate the sub optimizing its placement.