Why is my ipad backup much bigger after transferring itunes to a new PC?!

Hi,
I tried to migrate my itunes from my laptop on windows 7 professional (64) to my desktop on vista 64 home premium (both have the latest version of itunes). I used a tool called copytrans to migrate and it worked great. When I opened itunes and set the media folder in preferences to the right location, all my music and apps showed up. I then authorized my account.
I had my iphone 3gs (jailbroken) and ipad 2 synced and backed up to my laptop itunes. The folder ...\appdata\roaming\apple computer\mobilesync is 1.34GB on my laptop. Now when I connected my iPad 2 to my desktop it starts backing up, but the backup stops with the mobilesync folder at 6.4GB (at which point my C drive is full). Is itunes trying to copy the whole ipad to my c drive or something? This is crazy. Any help would be much appreciated.
I love my ipad and iphone but God I hate itunes. Is there anything more frustrating than this piece of junk!?

Edit again - My mistake, it turns out my iPad wasn't being backed up on my laptop although I thought it was. So if anybody else comes across this issue you can check to see if your device is backed up or not by right clicking it in itunes and selecting restore, and seeing if the device appears. If you have the same issue as me of disk space you can do this to relocate the backup file:
http://apple-ipad-tablet-help.blogspot.com/2010/07/change-ipad-default-backup-lo cation.html
I still hate itunes though

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Error 40265xxxx: Errors of the 40265xxxx range generally occur during the restore-from-a-backup phase, after iOS has been installed on the device. Restoring the device and setting up as new can resolve the issue. Before restoring as new, take steps to preserve the previous backups created by iTunes, such as copying the contents of the Backup directory onto the desktop. See iPhone and iPod touch: About backups to learn where backups are stored for your computer's operating system and additional precautionary notes regarding setting up as new. The backups created by iTunes store data such as your SMS, Favorites, Bookmarks, and other app data.
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Why is my ipad backup much bigger after transferring itunes to a new PC?!

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