So in setting up the new computer to handle SalesLogix web I need to run in a 32bit App Domain. I need to run the following command line function
cscript %SystemDrive%\inetpub\AdminScripts\adsutil.vbs set w3svc/AppPools/Enable32bitAppOnWin64 1
When it was run I received an windows error of type 0x800401e4. After a quick inspection of my Administration Tools I noticed that the IIS 6.0 compatibility components were not installed. I added them through control panel and 5 minutes later all worked. So if you receive this error when trying to update the IIS App Pool check your compatibility components for proper installation.