Going from phone to PC on a sync...

So, a while ago, I wiped my HD disc clean. It was catastrophic failure mode, and needed to give it a good scrubbing... I didn't really have a whole lot of "Gee, I should save this" time before it happened.
Thus, everything that's on my Iphone is more or less an orphan. There's no files on my computer whatsoever.
The music is one thing, if that can't be salvaged, so be it. I had that backed up elsewhere, and although it would be a pain in the butt to re-sync, there's like 2000 songs on there that I never listen to that could use a good purge anyway.
But my apps... I really have no desire to lose everything saved on them. That would make me cry.
So, how do I go about making sure my apps survive a sync without getting deleted? Is it even possible?

You can re-download apps from the app store for free (http://support.apple.com/kb/HT2519).
When I moved to a new computer I copied my backup onto it, ensuring that I had the same content (media and apps) as were on my iPhone. I still then got a 'all contents will be removed' message when I first tried to sync with it, but it did keep all my apps settings and stats - I can't guarantee that it'll work for you, but having the same apps in your iTunes library is a start.

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