I'm still having the same problem and I'm convinced that it is a problem, especially because the rpm variations under slow accelerations (what I was initially calling "surges") are back and seem to be getting slightly worse. Also, I see what Trannyman is trying to say about a minimal rpm drop between shifts, but as I hit 4th gear (when the problem is most noticeable), not only do I have to get on it for it to accelerate like it should but the rpm's drop in bunches, like it'll drop 400 rpm, wait a second, then drop another 500 rpm, wait a second, then drop another 500 rpm, all the way down to 1500rpm or so when I know its already in 4th gear, or so it seems. All of this is going on under a steady acceleration, no changes in the rate though.
Also, what tranny would I have in this 3800 V6, supercharged? Is there anywhere out there I can go to get some good drawings, manuals, schematics, etc on the tranny? I do have a degree in Mech Eng so I do have a mechanical background to understand this stuff, just not familiar with transaxles at all. I'd like to understand myself what some of the possibilities of this problem are and how the guts of these things work.
The mechanic who would do this work said he doesn't know what the problem is and would have to "dig around for a while" to figure it out. All that means to me is that he is going to charge me out the rear and still might not find anything.