In this article we provide athletic health care professionals with a variety of functional strengthening exercises to use in improving the muscular strength of the throwing athlete's shoulder. Upper extremity functional plyometric exercise in sport-specific patterns can be an important component of a throwing athlete's rehabilitation. We discuss several plyometric exercises, using the Inertial Exercise System, the Plyo-ball, and the Theraband. Proper use of these exercises can facilitate a safe and progressive rehabilitation program for the injured, throwing athlete. After the athlete has successfully completed the functional plyometric exercises, a throwing progression can be initiated.