The airplane anti-hijacking system is an access control, alarm, and lockout system that is installed on commercial aircraft for the purpose of preventing unauthorized persons from taking control of the aircraft. The airplane anti-hijacking system is a biometric system that authenticates the identity of the flight crew and automatically monitors the flight operation for anomalies. Should an anomaly occur in-flight, an emergency message is sent via satellite to the appropriate authorities. Upon receipt of an emergency message, airplane anti-hijacking system gives the appropriate authorities the ability to seize control of the aircraft by locking out in-flight control of the operation of the flight controls and operating the aircraft remotely. The airplane anti-hijacking system further comprises a craft control module and a plurality of biometric scanners.