Abstract: By sorting out the process and characteristics of ecological environment zoning governance in Yunnan province,this paper analyzed the main problems faced by the ecological environment zoning governance system in the new era,and put forward optimization suggestions from the aspects of strengthening the connection with the territorial space planning system to improve the environmental supervision system,and to promote the assessment mechanism,and to implement differentiated environmental policies. Under the background of the next reconstruction of the national space planning system,it provided reference for Yunnan province to perfect the theory of land space planning and construct the regional environmental management system.