I have a Bootcamp partition running Linux and I'm wondering if Time Machine backs it up as well? I ask because I'm installing a new HD soon and want to know if I'll lose my Linux set up?
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It does not back up non-mac disks. I recommend Carbon Copy Cloner to make a DMG of the Linux drive which can then be imaged to the new drive.
For anyone interested, this program, WinClone will make a DMG of a non Mac partition. You can also use it to restore from that image apparently.