Karst faulted basin area is ecological security shelter and contiguous poverty zone with paying rare attention to science and technology in comprehensive rocky desertification treatment of national engineering. Many problems like the geologic structure basin-mountain coexistence, water and soil resources in separation and serious rocky desertification still exist there. And these problems have a great influence on regional ecological security shelter function. Based on the National Key Research and Development Program of China "Rocky desertification evolution, integrated control technologies and demonstration in karst faulted basin area, Southwest China", Mengzi, Jianshui, Luxi in the eastern Yunnan are selected as the key study area, the mechanism of rocky desertification evolution at the basin scale would be illustrated, with the enhancement the utilization efficiency of water and soil resources, the ecological service function increasing,will be undertaken. We also build collaborative development model both ecological management and ecological industry, and provide technology and demonstration for ecological enriching people and ecological civilization construction. The expected outcomes of our investigation and research, are the mechanism of rocky desertification in karst faulted basins, technologies on integrated control, models of ecological industry, comprehensive benefit evaluation, and efficient space utilization of land resources, as well as high level of innovation team.