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Joe:
SuperDuper! ships with a script that will only copy /Users (and an important folder in /Librar): it's called "Backup - user files".
I agree completely that SuperDuper!'s status view is a bit misleading -- the idea is that we're in the "copy phase", not that we're "copying" the folders you're seeing listed. In any case, it stinks: we've extensively reworked it in v2.0, and I think you'll find it to your liking.
Because of its ability to do a lot of wildcards and other things, including Smart Update, SuperDuper! does indeed scan the entire drive each time you copy. On my system, with over 700,000 files, this takes less then four minutes: we do hope to optimize the algorithms further at some point, but it's pretty darn fast as-is...
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--Dave Nanian
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