They inactivity report shows mailboxes that were deleted when running the report with date filter most recent.
The Exchange server that the mailboxes resided on was removed from the Exchange Organization before another gathering could run.
Please run the following SQL Query through SQL Query Analyzer.
Update T_Mailboxes
Set DeletedObjectDate = GetUTCDate()
Where
ServerGUID in (Select ServerGUID from T_Servers where DeletedObjectDate IS NOT NULL)
If there may have been any Public folder that resided on the Exchange server in question that were deleted the following query should be run as well.
Update T_PublicFolders
Set DeletedObjectDate = GetUTCDate()
Where
ServerGUID in (Select ServerGUID from T_Servers where DeletedObjectDate IS NOT NULL)
Additional Information:
To have mailboxes marked as deleted in the database a server task against the exchange server that the deleted mailboxes were on needs to be run successfully. If the exchange server is removed from the Organization before a server task is run the mailboxes will not be marked as deleted.