Exxxxcellllent. Thanks to you all - I am re-configuring right now. Along with reinstalling the tools that were "cleaned up" for me. Thanks again.

[EDIT]
FYI - for the version of SAV I posted (9.0.1.1000) I went to:

Configure->FileSystem Auto-Protect.
There is an Options area where you can exclude selected files and directories and you can pick the extenstions or files/directories.

I also found out that you can restore quarantine items. Select Quaritine off of the View folder in Symantec. Then in the window that displays on the right, select the file (R) click and then (L) click Restore. I was able to bring back a few tools that way and rechecked them and they worked. Although - it just might be best to reinstall.
[/EDIT]

Thanks again for the information - it got me on the right track.