This study developed the prototype of the system and implemented its main functions, which is the intelligent integrated agricultural water management information system and service (IaWAMISS). The developed system was designed to be able to collect, process and analyze the agricultural water information of spatially dispersed reservoirs in whole country and spatial geographic information distributed in various systems of other organizations. The system, IaWAMISS, is also possible to provide the reproduced information services in each reservoir and space units, such as agricultural water demand and supply analysis and drought prediction, to the people, experts, and policy makers. This study defined the 6 step modules to develop the system, which are to design the components of intelligent integrated information system, to derive the utilization contents of existing systems, to design the new development elements for IaWAMISS, to design the reservoir information system can be used by managers of city and county, to designate the monitoring reservoirs managed by city and county, and finally to prepare the sharing system between organizations with the existing information systems. In order to implement the prototype of the system, this study shows the results for three important functions of the system: spatial integration of reservoirs' information, data link integration between the existing systems, and intelligent analysis program development to assist decision support for agricultural water management. For the spatial integration with the reservoir water information of the Korea Rural Community Corporation, this study get IaWAMISS to receive the real-time reservoir storage information from the measurement facility installed in the municipal management reservoir. The data link integration connecting databases of the existing systems, was implemented by integrating the meteorological information of the Korea Meteorological Administration with IaWAMISS, so that the rainfall forecast data could be derived and used. For the implementation of the intelligent analysis program, this study also showed the results of analysis and prediction of agricultural water demand and supply amount, estimation of Palmer drought index, analysis of flood risk area in typhoon course region, and analysis of the storage status of reservoirs related to each storm. This study confirmed the possibility and efficiency of an useful system development through the prototype design and implementation of IaWAMISS. By solving the preliminary 6 step modules presented in this study, it is possible not only to efficiently manage water by spatial unit, but also to provide the service of information and to enhance the relevant policy and national understanding to the people.