I have a similar issue with my desktop and the Paperport received fax file. But it happened before I upgraded to V4. It began after the latest windows update which included a malicious software removal tool. It does not happen on any of the other stations.
Leslie
This is probably because your drives where mapped using a batch file. If your computer was using a login.bat file. The MSRT probably thought it was a "malicious" file and deleted it.