One bit of information that may or may not be relevant. All the files that PT 2009 Aggressive is saying that it cannot find in C:\Windows\System32 folder are, in fact, in the C:\Windows\SysWow64 folder.
It looks like a Filesystem Redirector gets involved.
http://www.tipandtrick.net/2008/how-to-suppress-and-bypass-system32-file-system-redirect-to-syswow64-folder-with-sysnative/
Also: One thing I know for sure is if the keys below for ODBC are deleted, then picture management program Thumbsplus 7 cannot open its picture database. These were detect by special build siliconman04.
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\driver do microsoft access (*.mdb)\Driver : %WINDIR%\system32\odbcjt32.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\driver do microsoft access (*.mdb)\Setup : %WINDIR%\system32\odbcjt32.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\driver do microsoft dbase (*.dbf)\Driver : %WINDIR%\system32\odbcjt32.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\driver do microsoft dbase (*.dbf)\Setup : %WINDIR%\system32\oddbse32.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\driver do microsoft excel(*.xls)\Driver : %WINDIR%\system32\odbcjt32.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\driver do microsoft excel(*.xls)\Setup : %WINDIR%\system32\odexl32.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\driver do microsoft paradox (*.db )\Driver : %WINDIR%\system32\odbcjt32.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\driver do microsoft paradox (*.db )\Setup : %WINDIR%\system32\odpdx32.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\microsoft access driver (*.mdb)\Driver : %WINDIR%\system32\odbcjt32.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\microsoft access driver (*.mdb)\Setup : %WINDIR%\system32\odbcjt32.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\microsoft dbase driver (*.dbf)\Driver : %WINDIR%\system32\odbcjt32.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\microsoft dbase driver (*.dbf)\Setup : %WINDIR%\system32\oddbse32.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\microsoft dbase vfp driver (*.dbf)\Driver : %WINDIR%\system32\vfpodbc.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\microsoft dbase vfp driver (*.dbf)\Setup : %WINDIR%\system32\vfpodbc.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\microsoft excel driver (*.xls)\Driver : %WINDIR%\system32\odbcjt32.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\microsoft excel driver (*.xls)\Setup : %WINDIR%\system32\odexl32.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\microsoft foxpro vfp driver (*.dbf)\Driver : %WINDIR%\system32\vfpodbc.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\microsoft foxpro vfp driver (*.dbf)\Setup : %WINDIR%\system32\vfpodbc.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\microsoft odbc for oracle\Driver : %WINDIR%\system32\msorcl32.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\microsoft odbc for oracle\Setup : %WINDIR%\system32\msorcl32.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\microsoft paradox driver (*.db )\Driver : %WINDIR%\system32\odbcjt32.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\microsoft paradox driver (*.db )\Setup : %WINDIR%\system32\odpdx32.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\microsoft text driver (*.txt; *.csv)\Driver : %WINDIR%\system32\odbcjt32.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\microsoft text driver (*.txt; *.csv)\Setup : %WINDIR%\system32\odtext32.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\microsoft visual foxpro driver\Driver : %WINDIR%\system32\vfpodbc.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\microsoft visual foxpro driver\Setup : %WINDIR%\system32\vfpodbc.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\ms code page translator\Translator : %WINDIR%\system32\MSCPXL32.dll
HKEY_LOCAL_MACHINE\software\odbc\odbcinst.ini\ms code page translator\Setup : %WINDIR%\system32\MSCPXL32.dll