Taking into account particulars of the existing in the market foreign and domestic electrolytic disinfection systems the design, manufacture and usage of the integrated management system of water disinfection station were developed. In the course of the work were development of control system of anolyte production for disinfection of water in the membrane electrolysis facilities, development of the principles of adaptive management of the electrochemical synthesis and creation of a single integrated control system for disinfection stations, the efficiency of the integrated management system was evaluated later on.