The coordination between the operator and laparoscope holder has a major effect on the process and results of laparoscopic surgery. The most intuitive method is for surgeons to manipulate the laparoscope by themselves. Here we demonstrate an endoscopic manipulator control system based on pupil movement that uses an intention recognition system to improve manipulation performance. An experimental task was designed to verify the effects of the intention recognition system. The intention recognition system is installed on endoscopic manipulator. The two core elements of the intention recognition system are an intention judge and direction judge. A comparable experiment was designed to verify the effects of the intention recognition system. The results of the experiment show that control performance was improved using the intention judge element: the task time was much shorter and the motion trail was more stable.