The invention discloses a preparation method of a crab breeding special disinfectant, and belongs to the technical field of aquatic disinfectant preparation. The preparation method comprises the steps: drying croton seed under the blazing sun, preparing bean meal by an oil press, then mixing with vinasse and the like, supplementing with protease and lipase, inoculating with probiotics, fermenting, then allowing tea leaves to stand for getting moldy, carrying out high pressure steaming, grinding into a slurry, and mixing with the croton seed meal fermented material, a filling powder and the like to prepare the crab breeding special disinfectant. The product prepared by fermenting the croton seed meal by the probiotics effectively kills intermediate hosts, such as oncomelania, escargots and the like, of parasites in a pond, and cooperates with the tea leaf slurry to achieve the purpose of removing animal worm eggs, spores and harmful bacteria; after the disinfectant is used, the disinfectant can be degraded by soil microorganisms, is used as nutrients absorbed by aquatic animals and plants, and effectively solves the problem of drug residues of traditional crab breeding disinfectants.