Based on the empirical study of total provincial green factor productivity in China, it is found that the use of different DEA models will significantly affect the temporal and spatial distribution of provincial green total factor productivity, and the choice of efficiency measures affects less than the choice of production frontier Assumption. Further analysis shows that SBM model is more consistent with the real meaning of green total factor productivity. The results of SBM model show that China’s green total factor productivity (TFP) shows a decreasing trend from the eastern coastal regions to the western regions. Although the provincial total green factor productivity has improved during the period from 2005 to 2013, the difference among provinces has become bigger and bigger.