I've been at this for two days now. I'm trying to find a way to add a value to the User Profile Properties that indicates either the AD Group Membership. I've also considered creating separate Sync Connections and somehow adding a UPP that indicates
the Sync Source.
I found this thread and it makes sense. Our Audiences are working as expected, So I can only assume the import of Groups is actually working.
http://social.msdn.microsoft.com/Forums/sharepoint/en-US/bfa2c9a9-3ea7-4be1-af7d-29ac7675fcbf/active-directory-groups-are-not-imported-by-user-profile-service-application
Any ideas on how to accomplish this would be great!