The invention discloses a programmed control method based on cooperative misoperation prevention of a master station and a substation and belongs to the field of remote operations of a disconnector in a power system. The misoperation prevention systems of the master station and the slave station complement each other according to the different principles between misoperation prevention systems of the master station and the slave station, the different misoperation prevention emphasizes and ranges and the different data information granularity and real-time performance, so that the safety for the remote operations is improved. The master station and the slave station appoint to carry out interval control on an object and take a character string in the transition status as a unique identification control object; during an operation process, the master station checks the operational safety between the stations through system topology; after passing the check, a rehearsal instruction is sent to the slave station, and the slave station utilize five-prevention in the station to check the safety of operating steps; after passing the check, the master station issues an operation order execution instruction, and after the slave station receives the instruction, the slave station executes in sequence according to the steps of an operation order and returns an operation result.