ITunes sync after iCloud restore

So after retoring from an iCloud backup, I found that I can't sync apps with my computer without deleting all of them from my iPhone? Anyone find a worksround to this?

Thanks! I was hoping there was a way to store page/folder info for apps too, but this is more than fine.
Looks like the backup includes all the user data for each app as well (or it's stored somewhere, anyway), since all the app configs and data seem to be there when I re-download the app. Nice!
Followup question: what is "transfer purchases" for if you can't transfer them back to the device after a restore? I'm not complaining, just asking. What can you do with the transferred purchases?
HBJ

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