With the rapid development of social economy, the conflict between the increase of water demand and shortage ,pollution of water resources has become increasingly acute, which make water resources become a bottleneck of regional social and economic development. This paper established a model of regional multi-objective optimal allocation of water resources based on the comprehensive consideration of factors such as economy, society and ecology,which realized a research idea of change from the traditional single objective constraint to multi-objective constraints. Taking Jingling city as a research subject uder multi-objective constraints, through the establishment of model and the analysis of results,the paper got the result that agriculture and industry are faced with serious water shortage situation. Renchen, Shizhong, Qufu, Zoucheng, Sishui, Jiaxiang all exceed the average rate of water shortage in Jining.The result can provide decision basis for allocation of regional water resources and the most strict system of water resources management.