Ok, so I fiddled around a little this morning.
First off, ASIO kicked my butt. I got the driver installed, changed all the settings in REW. Hooked it up to my system though the HDMI port and hardly got any output. I messed around trying to get it to work and finally punted and hooked my computer up to an AUX input on the receiver with RCA connectors.
I set the sub crossover to 250 Hz (max available) and set the Denon to "Direct" and disconnected all my other speakers. I ran a quick test in REW and didn't see any difference in the plot.
Then for fun I took measurements in the same six locations that I calibrate Audyssey (see plot).
Overall the response seems fairly similar in all the locations, especially below 50 Hz.
Since I was in the system I tried doing a little tweak to improve my movie going experience. I added a little EQ at 19 Hz, 3 dB, Q 0.5 just to extend the bass a little. The measured difference doesn't show much but when I watched Fifth Element it was pretty good.
I feel like I've still not fully reconciled the process of getting the best out of the system, but it's not too bad for the moment.
If anyone has suggestions on how they used REW and miniDSP to optimize their systems, I'd love to read about it.