Geoinformation systems (GIS) are actively used in modern scientific research, including the field of Urban Territories’ management. The lack of a universal methodology for their application requires an individual approach in the study of water management and water and environmental problems in the region. The purpose of this article is to demonstrate concrete examples of GIS successful use in solving some water supplying problems. One of the leading research methods is geoinformation-cartographic modeling, which has a wide range of possibilities and contributes to the effective solution of water-related and water-ecological regional problems. The developed algorithm for GIS using in solving regional water, a step-by-step procedure organizes for carrying out research work, the presented structure of the thematic database facilitates the systematizatin of thematic data large volume with the base a GIS project is created, where information is integrated, calculations, and a cartographic model is created that visualizes the regional water management and water-e logical situation. The research examples carried out in the Institute of Hydrometeorology of the Russian Academy of Sciences (Siberian Branch) on regional water management and water ecological problems by means of GIS and using the method of geoinformation-cartographic modeling considered in this paper prove the effectiveness and their use expediency.