-Some emails are linked under the root folder in the ArchiveManager SQL database and not in the corresponding folders (Inbox, Sent Items, etc.)
-Recovery Manager for Exchange can't export emails under the root.
WORKAROUND
Follow the quick guide attached on this article that explains how to move archived emails from the root to a specific folder to then use Recovery Manager for Exchange to export the desired data.
The solution contains the next SQL scripts:
-LinkMessageForMMEA.sql: This SQL script creates a store procedure that will check the messages under the root and link them on a new folder
-ProcessMailboxesForMMEA.sql: This SQL script creates a store procedure that will show the new folder created in the AM website.
-RootFolderItemsCheck.sql: This SQL script checks the number of items under the root for every mailbox in the ArchiveManager Database
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