Hersheys C-
If you're coming at this from the perspective of whether you paid for something that you didn't get, I'm not sure what to tell you. Without being able to physically look at your car, it's difficult to tell if something was there but removed or if in fact it was never there, etc.
If your perspective is to recreate the SGII package by adding the factory subwoofer, I think most on this site would tell you to upgrade before going down that path. The "boston" speakers in this car are hardly what you would get from an aftermarket boston speaker (if you were attracted by the Boston name). Look at the Audio FAQ (link in previous msg) to see a picture of these fine paper products.
This "could" and I don't know for sure - just speculating... could be a situation where the automaker uses the same amp in the 6 and 8 speaker set ups to get economies of scale when ordering from the supplier. The difference in the six speaker system power rating may not be the amp itself being different but instead the watts you get without the subwoofer and center channel installed. I say this because I have read on this forum that members without the subwoofer often have the wiring for it. If you were really curious, you could post in the buy sell column and probably get a factory sub for cheap.
I have SGII but I am in process of replacing the fronts, rears, subwoofer, and amps in my car. I found the factory set up really annoying as you suggest (bass in the door, not enough mids up front, etc). I also found them to be 368 highly exaggerated watts.