The invention discloses an ecological high-yield circulating breeding system and method. The system is characterized by comprising a plurality of fish breeding pools (1) of the area ranging from 200 square meters to 700 square meters, a sealed greenhouse (2) is arranged on the fish breeding pools, an air inlet is formed in one end of the greenhouse, an air supply device (3) is additionally arranged on the air inlet, an air outlet is formed in the other end of the greenhouse, natural water drainage openings (6) are formed in the bottoms of the fish breeding pools, and water supplementing pumps (4) are installed on the periphery of the fish breeding pools and are communicated with a circulating water source (5). By means of the system and method, the green ecological circulation is achieved, no chemical medicine is used in the whole system or the whole breeding process, full-food-chain recycling is achieved for waste water and excrement produced during fish breeding, the commercial high-yield breeding that 50,000 kilograms of snakehead and 25,000 kilograms of bass are produced per year can be achieved, grass carp, chub, yellow catch eel and other high value-added aquatic products can be produced, and meanwhile, completely-green organic rice, fish, shrimp, crab and other by-products high in economic value can be produced in paddy fields.