Well, I have a similar problem. I have a 350G internal drive on my iMac with Snow Leopard. The other day I came home to see that DISK IS FULL kept coming up. I checked INFO and sure enough, it was saying no space left.
I checked my CLONE drives, and they say 60G space left. This is what it should be. I added up the GET INFO's of the root drive folders and sure enough, I should have 60G left or so. Spent time on the phone with Apple Care and after trying to repair disk, nothing was different. I need to RESTORE entire drive after NEW PARTITION to clear drive. They said that they did hear of this but it's very rare. It can mean that the drive is going bad, but nothing is confirmed. I'm going to just copy from my clone drive and see what happens with the INFO first.. I don't want to do a clean install and put all the time into it if there's a drive problem, as I'll get a new drive if it doesn't work out, and at that time do a clean install.
According to my conversation with Apple Care, adding up all the GET INFO in folders of root drive should be close to what it's saying for the total.
Did restoring your entire drive correct the usage total for you?