Based on the 58 years monthly flow data (from 1956 to 2013) editing by Jingle hydrological station of Fen River and Shangjinyou station, data resources are used to analyze the annual and inter-annual changes from spatial and temporal scale by statistical methods, mainly annual spatial and temporal distribution, trend of inter-annual changes, cycle and mutation changes. The reasons of runoff into reservoir changes are deeply analyzed by annual precipitation data of catchments above Fenhe Reservoir 1956 to 2013 and the land and water reservation methods which are implemented recently. It shows that there is a significant decrease of the inter-annual run-off with main and second cycle periods, 23a and 13a respectively. Furthermore, it exists mutation point between 1970 and 1971 through runoff series. As for further analysis of the causes of Fenhe Reservoir runoff changes, it illustrates that the change of precipitation is the main reason the facilitate runoff changes. Also, the land and water reservation methods which are implemented in upstream of Fenhe Reservoir increase water storage capacity of soil, showing it non-ignorable effect to runoff changes.