Nowadays, the contradiction between economic development and resources, environment has become increasingly prominent, which makes people pay more and more attention to the improvement of ecological efficiency. The accurate evaluation of regional ecological efficiency and the analysis of its influencing factors are important for building a "two-oriented" society, and realizing sustainable development the theoretical significance and policy reference value. In this paper, the statistical data of 2004-2016 is using to calculate the ecological efficiency of the eastern, central, and western in China by using the super-efficiency DEA model. The dynamic changes of the regional ecological efficiency are analysed. Then, the influencing factors of the regional ecological efficiency in China are analysed. The empirical analysis shows that the regional ecological efficiency in our country shows a pattern of decreasing from developed cities to less developed cities and declining from the east to the middle and western region, with obvious "club convergence" phenomenon, with significant spatial correlation and agglomeration. Finally, based on the results of empirical analysis, some suggestions are putting forward to improve the regional ecological efficiency.