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In order to the eco-economic theory, ecological water conservancy research, and regional water resources rational coordination theory, the paper studied development and change rules of regional ecological water conservancy economic system using the method of system analysis, combining with the research status of the regional ecological water conservancy economic system in China. Base on analyzing the basic concept of regional ecological water conservancy economic system, the components of regional ecological water conservancy economic system were discussed. The research subject of this paper is to provide a theoretical basis and train of thought for the establishment of new development mode of regional economy and society, which will play a certain role in promoting the protection of natural environment and the development of economy and society.