The invention provides an intelligent water net system and an application method thereof. The invention relates to an intelligent water net system and an application method thereof. An application layer comprises a foundation terrain database, a water supply pipeline database and a service database. A support layer is connected with an operating system, a database search engine, a GIS assembly, a GPS service assembly and a message middleware. The application layer further comprises a server terminal and a handheld terminal. The server terminal comprises a task management module, a region management module, a personnel management module, a map application module, a monitoring and checking module and a statistical analysis module. The handheld terminal comprises a task management module, a problem management module, an in-place prompting module, a record management module, a map navigation positioning module and a photographing and audio-video recording module. The system and the method are applied to an intelligent water net.