How to sync apps with iTunes after restore from iCloud?

I just recently restored my iPod touch to 5.0.1. and I used my iCloud backup. While it worked for the most part, when it came to downloading the apps, I found it cumbersome. I would prefer that I just plug in my iPod to iTunes and let the apps install from the computer. It seemed to sync up, but all the apps on my device remained inactive and uninstalled. More specifically, they were still 'Waiting...'. Weirdly enough some of the apps even looked like they were downloaded partially but despite numerous attempts, they simply refused to install. I have restored my iPod again in frustration and before I restore yet again, I'd like to ask if there is a solution where I can restore my iPod from iCloud, keep the apps arranged but have them installed over iTunes the traditional way?

They both are.
Another question, right now I have 3 out of 5 computers authorized to use with my iTunes account. But what happens If they all break and I end up getting a 6th computer?

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    Message was edited by: Michael Salama
    Message was edited by: Michael

    You can't restore your iPhone with iTunes?
    What happens when you select Restore - any error message provided?
    Have you reauthorized your computer with your iTunes account with iTunes - the same iTunes account used to purchase or acquire content from the iTunes store including apps?
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