Hello,
Yes, it is always recommended to backup Exchange database using the agent. You may exclude the priv1 and pub1 files from the file backup.
9.1 uses active file exclusion feature to exclude the Microsoft Exchange Server flat-files from the file system backup. For additonal information refer to the following technote:
Ttile: During the backup of an Exchange server, the Microsoft Exchange database files are skipped
http://support.veritas.com/docs/207980
Hope that answers your question. In case of further doubts, revert with details.
Additional Information :
For information on the recent VERITAS Backup Exec security vulnerabilities, including links to the downloads for the necessary hotfixes, please refer to the following document:
Patch summary for Security Advisories VX05-001, VX05-002, VX05-003, VX05-005, VX05-006, VX05-007
http://seer.support.veritas.com/docs/277429.htm
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Regards.