According to the high real-time and high precision control requirements of modern printing and packaging industry for honeycomb cardboard cut machine, a flying shear control system based on ARM9 S3C2416 and industrial touch screen for honeycomb cardboard was developed. The process of servo tracking flying shear was controlled strictly using adaptive fuzzy PID control algorithm. It significantly improves the dynamic response performance and precision of fixed-length shear. The control system has advantages of small structure, high reliability, strong anti-jamming capability, high control accuracy, good real-time, and robustness.