The present disclosure relates to a pulse diagnostic examination system and an instrument operation method thereof. The system may include a pulse touching and sensing unit, a pulse frequency sensing unit, a pressure feedback sensing unit, a blood flow rate sensing unit, a carpi radial artery sensing and detecting unit, a data base unit and a data processing unit. The pulse touching and sensing unit is placed on nine touching and sensing points corresponding to cun, guan and chi of the arm of the human. The pulse touching and sensing unit may press and move along an artery vertically and horizontally corresponding to the nine points for detecting a pulse frequency, a downward-pressure feedback strength, a blood flow and a thickness of the artery. The result generated in the process may be compared with a pulse classification table for analyzing a corresponding pulse by the position, the strength, the frequency and the classification of the pulse for diagnose and treatment.