I've had this happen twice now: I boot to win7 in boot camp, and install the windows updates as indicated by windows. After rebooting , osx loads slowly at first, and disk util tells me there are errors on mac partion. I rebooted to RestoreDisc where disc utility says it cannot fix errors and to format whole disk! I booted into Windows again, and saw that there is a temp folder on the mac partition full of windows executables! Now I have read that win7 updates will write to any adjacent partition, using it as a swap drive!
UPDATE: I just decided to not continue punishing myself and got Parallels7. Apparently W!ndow$ uses the next partition as a swap drive regardless whether it has access or not. ugh.