Any way for iPhone backup to save apps?

I wonder if there's any way to save my apps when i upgrade the iPhone software. The apps don't seem to be saved when i backup and then restore. Is there some aftermarket software for the iPhone that can do that? I'm running iTunes 9 and iPhone software 3.1
Thanks!

PhoneView will do what you want, but it shouldn't be necessary. Every time I restore, I get my apps back.

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