Best way to restore game app data to iPad after rebuild

I rebuilt my UMBP over the weekend. Before doing so I took a copy of my documents, movies etc, and the entire iTunes library folder and placed it onto an external HDD. This was not a Time Machine backup, but a straight copy. After rebuilding, reinstalled latest iTunes and copied just the songs back across and re-authorized the library. I didn't copy the entire folder into the new place, but I still have all the items.
When I went to connect the wifes iPad for sync, it begins the whole "new device" process and must be "erased to sync." Problem with this is she has one or two apps on there with significant game data (Bejeweled for instance) that she doesn't want to loose.
Any advice on best way to resolve this, i.e. able to connect the iPad and sync to rebuilt machine without losing the data? Can I obtain the old backup(s) from the folder and use that or am I better just copying the entire folder across from the external drive onto the rebuilt machine. I did have a search and while there is plenty of backup / restore advice, nothing seems to match my situation 100%.
Thanks in advance.
Message was edited by: MalMcA - Spelling correction

Try to backup manually. Disable autosync in iTunes, connect your device, right click on it in the device list and choose backup. This will copy all settings, photos and 3rd party data including your game settings to iTunes. Do the same thing to transfer your purchases to be sure to have the latest apps and media copied over.
Set up at least one contact and event on the computer, so that calendars and contacts are being merged during the first sync.
Since all data will be erased during this first sync, use this backup to restore your settings afterwards.
See what's stored in the backup here: http://support.apple.com/kb/HT1766
Restoring: http://support.apple.com/kb/HT1414

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