Bob,
Yes, the changes definately cleaned up bass issues. Based on my original graph I had two note bass. Now it is much more even.
I wouldn't have even attempted this without the software. I did adjust my sub (used only for HT) manually once. It was a PIA and I never moved onto the mains. My first move with the software was to find an optimal speaker position within the reasonable options of my room.
The software quickly pinpointed problem frequencies. Next I used the tone generator to find the exact locations in my room of the problems and started treating those spots.
I have 7 major problem areas that I have attacked with fiberglass panels and one helmholtz resonator. There is an eighth problem area that is into the room a bit so I left it, but the rest were either in a corner, mid-wall, or quarter-wall. Some were at the floor, some were at the ceiling. None were floor to ceiling, and not all corners, mids, or quarters needed work.
I still have plans for more work on the seven areas. The forecast is for crappy weather for the next 4 days which may give me a chance at new measurements soon.