Velodyne DD-15 setup question

Hello

I own a DD-15 that I use mostly for HT and once in a while in a 2 channel environment. My system consists of a univeral Esoteric UX-3 SE going into a Mcintosh C2200 preamp and into a McIntosh MC402 amp and onto some PMC IB1's for my 2 channel setup. In the same rig I have satellite and the above source going into a Myryad MDP 500 G6 processor and to the 402 amp and Odyssey HT-3 3 channel amp. The Mcintosh C2200 acts as a pass through piece in this realm. My question is.... should I be setting up the DD-15 for both the 2 channel setup and the HT setup separately? I'm thinking of the CUSTOM setup (#5) to augment my 2 channel listening if needed, and the other tailorable setups (1-4) as my HT. Should I be doing my room correction sweeps for both modalities? Should I set my processor to control the sub characteristics or leave the sub to control all below 80 Hz? Should I set all things on the processor as I want it before doing the room correction sweeps? I know it sounds a bit complex, but I'm counting on advice from my fellow audio/video docs! Thanks. Dave