I didn't check the UUIDs before this, so I can't say whether they were the same or different beforehand, though this is a good theory. In any case, I repartitioned the backup drive, and verified that both now have different UUIDs (shown by clicking the "Get Info" button in Disk Utility). Now it seems to work properly. Thanks!
Maybe SD should check for, and warn, if it sees drives with identical UUIDs?
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