Do a Time-Machine backup with a portable hard drive to save your Data and Programs.
Then stick in the USB stick with the Mac Software, select Disk Utility before Installation and delete the MB Airs hard drive first, then do a clean install of Snow Leopard, download and install the updates and then restore the system with your Time Machine backup. -> DONE.
Thank you very much! Doing it now. I was just worried that restoring from a time machine backup would also restore the "bad" files as well. Admittedly, I don't understand everything yet (im still learning how to use a mac).