Abstract: The setting up of policy system for eco-agriculture in China can be divided into two tasks with one on how to practice eco-agriculture by a recommended agricultural green action list, and another on how to recognize eco-agriculture with a certification system. Eco-agricultural certification mainly observes the final results of agriculture operation and judges whether they are complied with the principle of balancing with resources, friendly for nature, well protecting environment and producing safety food. On the other hand, the recommended agricultural green action list mainly concerns about a list of actions which can be chosen from, for the regulation and control of agroecosystem structure, function, input and output during the development of eco-agriculture. The setting up of policy system for eco-agriculture should follow the approaches of firm principles, simple indicators, adaptation for local situations, easy for operation, efficient to incentive, and convenient for verification. The detail design of eco-agriculture certification system including indicator system, verification method, information exposing system, credibility record system, incentive measures and certification process, are discussed. For the agriculture green action list, the categorization system, the action description, economic support measures and the operation procedure are introduced. The paper can provide a reference for the development of eco-agriculture in China.