How to Unsync Applications Without Deleting

Open iTunes.
Connect your iOS device to the computer via USB cable.
Select the device within iTunes. Click the 'Apps' tab.
Remove the corresponding check mark next to the applications you wish to stop syncing with the device. Removing the check will remove the app from the device, but it will remain in your iTunes library with all the data intact.
Click 'Apply,' then 'Sync.'
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