I have a Windows 2003 server that I occasionally (every 2 weeks or so) get NTFS errors during the backup (Backup Exec 12.5). It is always the same disk (dynamic spanning two volumes). The VM datastore is on a NetApp iSCSI SAN. If I run chkdsk, the errors clear up. Happened last night again. I have an entire directory that is inaccessable now. Hopefully chkdsk will fix it again.
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