The invention provides an automatic medicine dispensing management system for a pharmacy. The system comprises a database used for storing medicine in-warehouse information and ex-warehouse information, a communication module used for receiving prescription data, an identification module used for identifying medicine in-warehouse time, a logical operation module used for calculating the proportion of real-time quantity to in-warehouse quantity of a medicine, a display module used for displaying identity information of a buyer, a verification module used for verifying the identify information of the medicine buyer, an alarm module used for warning an abnormal state of the medicine, and a medicine dispensing module used for dispensing the medicine. With the adoption of the method and the system, the medicine information in a prescription can be quickly determined, the medicine can be accurately dispensed, and whether the medicine requires replenishment or is in an adequate stock state can be mastered through automatic calculation.