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I had the same slow sync problem that many others have seen on my 3gs. Always at least two minutes or more, even with no changes, regardless of rebooting the device etc. Sync was with MobileMe's WebDAV, I have no other machines running OmniFocus.

I finally realized that Calendar Export was set to On, BUT I had never gone into the options to click "Synchronize" to create the iCal on the server (so no calendar existed).

After I DID click Synchronize and create (and subscribe to) the calendar, all my syncs were down to 10 seconds, and have stayed that way for a day or so. I'm hoping they will continue to stay that way.

My guess is that OmniFocus is messing up when it tries to sync but no calendar has been created.

I don't know if this may be only one of the causes of this problem for others, but hopefully this helps some of you.