ITunes will not sync all of my apps.

Hi There-
Since I have updated my iTunes to the latest version (9 I think), not all my apps are syncing over. In the new version, you can check each box next to the app and it will either sync or not sync the app to my iPod Touch. My problem is that even after I check the box, it says it is syncing it over but nothing goes to the touch and the box is immediately unchecked. Another problem it is giving me is that if I choose an app, another one will uncheck and the whole thing is frustrating. I use all my apps and I want them all to be synced, Unfortunately, these is no box that gives the option to just sync all. You have to go in and choose each one, well, I do that and then I get apps that don't sync. I do hope someone will be able to shed some light on this. Thanks for looking and taking the time. Please let me know if you have any questions that might help diagnose this problem.
Sincerely- Doug

I have the same problem since getting iTunes 9. However, I think mine has to do with the fact that the apps that won't sync were purchased with a different iTunes account. I have tried to sync with both accounts but they still don't get sync'd. They show on the iTunes screen, they are checked, and they show on the iPhone screen where they will be when sync'd but once I sync, they aren't on the phone but still show in iTunes as sync'd. If I go to the App Store on my phone (3G) and look at the app, it shows "installed" but aren't on the phone. I have tried using my MAC and a PC; I have tried everything to get them to show up but to no avail. Anyone out there can help??!?!?!?!?

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