How to stop to sync ipad apps with itunes without loosing everything?

My iPad is synching it's apps with itunes. Now that we have icloud, my ipad already has a backup in the cloud, and the PC backup of my apps is no longer useful. My goal is to stop my apps to sync with itunes on my PC because it is useless, it takes a lot of space on my hard drive (with many apps other 1-2GB each), because it drains my network bandwidth when it syncs, and finally because it makes my music synching with itunes extremely long (because it needs to sync all apps when it sync the music), and all of that without any use.
I tryed to simply uncheck "sync my apps" , but itunes wants to delete all my app and app data if I do so. I searched online and found out that some tryed to let itunes erase them, then use the icloud backup, but it seems that the icloud backup also backup the "sync my apps is checked", so it is not working. I tryed contacting Apple directly but for itunes they say we have to use the Fast Land, which cost money, which is conter logic (why should we pay to report bugs and get support for an unworking product that should work properly in the first place?), and also very frustrating.
I got poor support by Apple over the years, but I now that the best support often comes from the people that uses the product itself, and that is why I am trying to get the answer from you guys over the support communities.
None of us is paid to help each other, so thank you in advance for your time!
PS: Apple; fast lane needs to be free, it's not normal to have to pay to get the service every company in the world gives freely...

MikeKruse wrote:
How do I keep these computers in sync in iTunes without iTunes re-arranging my iPhone home screen and corresponding app icons?
You don't. Each sync-able item (apps, music, contacts, calendar, etc) can only have one source. You don't see it because all of the iTunes libraries have the same apps, but if they didn't, it'd be adding and deleting apps too. So each type you sync, the one you're currently syncing with becomes the authority.
Since you state that your goal is for all the libraries to match, there's no reason to be syncing them all. Pick one, designate it as the authority, and on the other two, don't sync apps.

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1.Please don't laugh at me when I say I am not being able to sync my iPad, after having been using it for more than a year now!!
2. I had been syncing my iPad2 with iTunes on my Windows Vista machine. After my Windows Vista Laptop crashed, i replaced it with a Macbook Air 128GB (MBA). Since hard disk space on the MBA is at a premium, I transferred my iTunes Media Library to a 64 GB USB drive.
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Ok guys! Mystery solved.
I got the crashed Windows Vista machine up..... albeit crawling..... and synced the iPad back with iTunes on it. From the iPad itself, deleted ALL video files (movies and podcasts). From Windows iTunes, by manually managing the audio files, deleted ALL Audio files.
Thereafter got back to MBA iTunes and synced. This time the operation went through.
Thank you for giving the matter a thought. Shared the way I managed to resolve it so that somebody somewhere, trying to do a similar operation and running into similar problem as I, can have some pointers to resolve his/ her issues.
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