The invention discloses a blue algae inhibitor composition which is characterized by being prepared from the following raw materials in parts by weight: 30-35 parts of aluminum polychlorid, 18-24 parts of aluminum potassium sulfate, 13-15 parts of erythrocin, 15-18 parts of monocalcium phosphate, 14-16 parts of bacillus powder, 13-17 parts of vitamin B, 15-18 parts of calcium bicarbonate, 17-19 parts of epidesmine, 11-13 parts of lilium brownie juice, 2-4 parts of honeysuckle, 3-5 parts of radix stemonae, 1-3 parts of radix sophorae flavescentis, 3-5 parts of black nightshade and 2-5 parts of radix euphorbiae lantu. When the blue algae inhibitor composition is used in the process of preventing and treating cyanobacteria bloom in aquaculture water, no death of farmed animals due to oxygen deficit can be caused, the pollution of heavy metals can be reduced and blue algae can be effectively controlled, and the cyanobacteria bloom is unlikely to re-occur.