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Lindsey is a distinguished graduate of the Air Force Undergraduate Pilot Training (1983). He is also a distinguished graduate and recipient of the Liethen-Tittle Award as the outstanding test pilot of the USAF Test Pilot School Class 89A (1989). He was awarded the Distinguished Flying Cross, the Defense Superior Service Medal, the Defense Meritorious Service Medal, 3 NASA Space Flight Medals, the NASA Outstanding Leadership Medal, the NASA Exceptional Service Medal, the Air Force Distinguished Service Medal, the Air Force Commendation Medal, the Air Force Achievement Medal and the Aerial Achievement Medal. He is an inductee into the United States Astronaut Hall of Fame.