For the health of lake ecosystem and sustainable utilization of lake resources, it is necessary to manage the lake ecological suitability based on the lake-specific environmental conditions. Lake ecological suitability analysis can quantify the ecological function partitions, which can provide scientific foundation for rational utilization of lake resources and ecosystem management. Based on ecological investigation of the lake environment, ecological suitability in Lake Futou has been evaluated by selecting regional representative factors such as water quality, biological and man-made interference factors, utilizing GIS technology and using the model of multi-factor summation with different evaluation grade and weights. According to results of suitability evaluation for each region and the lake's ecological environment protection requirements, the spatial area of Lake Futou can be divided into extremely suitable region, highly suitable region, moderate suitable region, weak suitable region and non-suitable region. The area of each region is about 12.04%, 24.81%, 49.65%, 9.58% and 3.92% of total area of Lake Futou, respectively. For the purpose of the protection and ecologically sustainable development of fisheries, the extremely and highly suitable regions are suitable for ecological aquaculture, and the moderate, wake and non-suitable regions must be restored to normal conditions from the present damaged ecosystem.