This study addresses the excessive consumption of river basin water from the Poyang Lake area in China. Consumption of water for irrigation, together with the discharge of agricultural non-point source pollution, is seriously affecting the water quality of Poyang Lake. This study assesses the application of integrated ecological restoration technology for agricultural non-point source pollution in the Ganfu Plain Area, which is an important agricultural production base in the Poyang Lake basin. The results indicated that the water-fertilizer comprehensive regulation mode for double-cropping rice provided water savings of 10.4% and increased rice yield by 6.5% per hectare. Furthermore, it reduced drainage water pollution by 20.4%, and emissions of ammonium nitrogen (NH 4 + -N), nitrate nitrogen (NO 3 − -N), total phosphorus (TP), and total nitrogen (TN) from rice paddy surfaces by 18.6%, 11.1%, 15.4%, and 16.0%, respectively. The eco-channel-pond wetland system effectively reduced TN and TP pollutant levels in rice paddy drainage water; the eco-channel reduced TN and TP by 9.3% and 14.0%, respectively; and the pond wetland system showed reductions of 8.6% and 22.9%, respectively. The "three lines of defense" purification technology, including rice field source control, eco-channel interception, and pond wetland purification, removed 29.9% of TN and 44.3% of TP.