Taihu Basin, the transitional zone between the land and the lake, influents the health of the whole river basin ecosystem, and plays an important regulatory role in the purification of the surrounding city ecological environment. The health assessment of wetland ecosystem in Taihu Basin is advantageous to the scientific management of lake wetland, so as realizing the sustainable utilization of float lake wetland resources. In this paper, water quality were investigated based on 11 typical lake wetlands of Taihu Basin during the period of 2012-2015, and try to build a method of the health assessment of wetland ecosystem in Taihu Basin, which considered the method of subjective and the objective weight-deciding, combined the natural condition with social function of Taihu Basin and propose ecological repairable index creatively. The results showed that Lake Kuilei, Lake Shang and Lake Qianzi are the lake wetlands with excellent healthy ecosystem in the Taihu Basin. The healthy level of Lake Changdang ecosystem is good. There are some lake wetlands with the middle healthy level in the Taihu Basin, such as Lake Yangcheng, Lake Kuncheng, Lake Yuandang and Lake Dianshan. Lake Ge, Lake Cheng and Lake Sangui are in the poor healthy level. The lake ecological health assessment system and lake ecological health assessment results established in this paper are of great practical significance for the management of lacustrine wetlands in Taihu Basin.