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Root after root

USB Debugging just allows your PC/Mac to communicate with your Droid through adb when it's plugged in via USB. And Stay Awake just prevents the screen from turning off when the phone is plugged into a power source. Both are personal preferences, and won't affect anything if you turn it on or off, unless performing a task that requires them (like anything involving adb or apps like PdaNet).
 
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