You can add all mailboxes to the backup content for Exchange Online. You can add a mailbox in the following methods:
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Manual Discovery:
If a mailbox is added manually, only the administrator can edit the associated plan and the discovery type for that mailbox to automatic.
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Automatic discovery:
You can use the automatic discovery method to automatically find mailboxes for backup and restore operations. The mailbox settings and their plans are inherited from the autodiscovery entity such as the Active Directory group. Any manual modification made to a mailbox plan converts the mailbox type to manual.
To edit the discovery type from manual to automatic for a mailbox, go to Manage > Change plan, and then select the checkbox for Inherit settings from the group configured in the Content tab.
Note
To limit the access of the Azure app to only specific Exchange Online mailboxes, see Limiting application permissions to specific Exchange Online mailboxes.
Procedure
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From the navigation pane, go to Protect > Office 365.
The Office 365 Overview page appears.
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On the Apps tab, click the app.
The Overview page of the app appears.
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On the Content tab, in the upper-right area of the page click Add.
The Configure Content page appears.
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Select Add content to backup, and then click Next.
The Add Content tool appears.
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Under Standard, select All mailboxes, and then click Next.
The Content tab appears.
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Click Next.
All mailboxes that are discovered will be added to the content. When the discovery job is complete, the Office 365 Plan tab appears.
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From the Office 365 plan list, select the plan to use for all mailboxes, and then click Next.
The Summary tab appears.
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Click Submit.