The main purpose of this study is to explore the factors that affect the transformation of over-depopulated rural villages. Specifically, we investigated the reasons of the rapid decrease in the number of over-populated rural villages shown by recent census data in spite of the continuing decrease of population in rural area. We used a binary-logit model and the Census of Agriculture, Forestry and Fisheries data(2010, 2015). The main results are summarized as followed: First, the over-depopulated rural villages with strong agronomic base are more likely to exit from over-depopulation. Second, returners from urban to rural have a positive impacts on the revival of over-depopulated rural areas. Thirds, improving the basic services accessibility of rural residents is also critical for keeping rural community more sustainable. These findings can be used to make effective strategies to revive the depopulated rural villages.