I have Filr 1.0.1 setup as a large installation (3 VMs) communicating with an OES11SP1 server (NSS volumes).
All our Net Folders are set to JIT sync, as they are so large that they have never synched properly. However, when I go to some defined Net Folders, there are many subfolders missing. The Filr is setup with Admin rights (for testing) and my user account as full rights.
To give an idea, we are seeing 9 folders in Filr, but there are 45 folders in the actual folder, all visible in the Novell Client.

I haven't been able to see a TID on this that applies to me, but I'm happy to be shown otherwise. Of course, the folders in question are relevant to the Administration team members, which makes the issue very visible.