I\'ve recently started seeing this line in my Visual Studio 2005 output window when launching my application:
FTH: (7156): *** Fault tolerant heap shim applied to cu
"Rundll32.exe fthsvc.dll,FthSysprepSpecialize" looks to only clear the list of currently flagged applications. if your application still causes oddities, the FTH should still step in and take over.
as already mentioned:
Set this registry value to 0: HKEY_LOCAL_MACHINE\Software\Microsoft\FTH\Enabled
this should disable FTH for the whole system.