The invention discloses a seawater desalinizing scale inhibitor and a preparation method thereof. The seawater desalinizing scale inhibitor comprises the following raw materials: trisodium phosphate,amino sanya methylphosphonic acid, polyaspartic acid, benzotriazole, water, chitosan, zinc borate, water-soluble copper sulfide, gluconic acid, sodium hypophosphite, alkenyl glyceroether, diacetylmonoxime, itaconic acid, hydroxyethyl diphosphonic acid and 2-enzothiazole; the product is mainly applied to seawater desalinization, has high calcium tolerance and high scale-inhibiting dispersibility, is antibacterial and bacteriostatic, avoids environmental pollution and has corrosion inhibition rate being 97 to 99.9 percent; the product also can be applied to submarine oil field return water and oil conveying pipelines, can prevent metal ions, particularly barium and strontium ions from forming scale, has the pH value of 7 to 9 and has environmental friendliness; and the scale inhibitor has small use amount, operation concentration of 5 to 25*10<-6> and durable effect, has the scale-inhibiting effect of 98 to 99 percent after being placed for one month at 50 to 60 DEG C, has high temperature resistance, scale-inhibiting stability and corrosion-inhibiting property, and avoids discharge of three wastes in the synthesis process.