Might have been each Commander's choice as to how to handle 'em.
Roger that.
When someone goes AWOL and is apprehended, they are returned to their unit of assignment. When they are declared a Deserter (usually after 30 days AWOL), they, in effect, become a fugitive. If apprehended by law enforcement or military authorities in a Deserter status, they are turned over to the nearest Military Confinement Facility.