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My goal is to create a bootable backup of my SSD boot drive on an external HDD. I'm using a Mac Pro mid-2010, so I can swap out the boot drive should my SSD ever get corrupted. Is there any reason Super Duper wouldn't be able to "smart update" a clone of the SSD onto an HDD? (And should I consider alternatives to Super Duper?)

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SuperDuper can do this. I've done it with a MacBook before. As far as SuperDuper is concerned, it's just two drives.

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From the developer:

Of course. THere's nothing special about SSDs from a file perspective - they work just like HDDs.

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