Bumping this due to numerous changes in the setup.
Since that first post I've upgraded the following:
Projector from Mitsubishi HC1600 to Optoma HD20 to Optoma HD25e
Projector screen from 100" 16:9 to 125" 2.35:1.
Receiver from HK AVR254 to Denon 1713 to Denon 2113CI.
Main speakers from Klipsch KG 5.5 to Crites CS-1.
Center from Klipsch KV3 to KLF-C7 to phantom center.
Moved side surr to rear and added Klipsch KSB3.1 as the new sides.
Added two sealed Dayton 18" subs to go with the dual svs subs I already owned.
Added new HTPC with JRiver Media Center.
Added new, larger media server.
New room orientation.
A few bass traps and acoustic tiles.
Drapes for the side walls, blackout curtains, and material covering most of ceiling to reduce reflections.
Been a steady work in progress. Also bought a usb mic and learned how to use REW.
Using Sweethome3D I modeled my room before and after. <a class="attachment loginreq" href="/attachments/78008" title="">NewLayout.zip 2895k .zip file
Before: 5.1 system that bounced between 3-4 subs, listening positions against boundaries
After: 7.1 system, 4 subs at mid walls,
I'm enjoying the new arrangement so far, a definite improvement from before, and I have yet to EQ the system. There are a few more changes to be made, before I can optimize.