The System Center Mobile Device Manager administrative template adds Windows Mobile Settings that can be applied to Windows Mobile Devices. Although the Group Policy Object Editor does show the other Windows GPO options, these are not applicable to the Windows Mobile Devices. The only GPO options applicable are those found in the Windows Mobile Settings in the Computer and User Configuration.
The settings for Windows Mobile devices are found in both the Computer Configuration and User Configuration . In the Computer configuration they are found in two places, in the root and under Administrative Templates, and both are labeled as Windows Mobile Settings. In the User Configuration section of the GPO editor the Windows Mobile Settings are found in the Administrative Templates only.
Ellis George | Senior System Center Support Engineer