In order to practice a new water management concept and build an upgraded version of river lake chief system in water ecological environment management, a comprehensive construction of ecologically clean watersheds has been carried out in Shanghai. By this way, people’s living environment can be improved and a more balanced development between economy and society can be gained. This thesis aims to provide a new guide for the construction of ecologically clean watersheds in Chongming District by analyzing its current problems and the ecological measures that have been taken during this process.