I am as developer are using the latest IS2013 updates....
Currently I do not understand why the ###### all my simple tools started within my developer folder tree gets a false positive alarm.
To get ride I added the "X:\Developer" folder on the file exclusions while hoping all on the tree (sub tree) gets ride of false positive alarms.
Well, this did not helped at all and I had to add the related tool exe to have NO false positive alarms!!!
Is this as expected??? 
Also on false positive recover the exe file gets LOWER CASE and this bring the Tortoise SVN into trouble while the triggered file names are CASE SENSITIVE!
Please drop a line how the exclusions expects to work... 
Regards
HpW