Objective To evaluate the quality of enterprise food safety standards for aquatic products in Zhejiang Province, analyze the problems and reasons, and put forward countermeasures to serve for the government and enterprises. Methods Three hundred and twenty-five pieces of enterprise food safety standards from Zhejiang Province health administrative department were randomly sampled for assessment which covered from June 2009 to December 2015,0 samples each year and 25 samples for 2009. Results A total of 24 839 enterprise standards were received, 6 210 were for aquatic products (25.00%). Zhoushan, Ningbo, Wenzhou and Taizhou accounted for 61.13% (3 796/6 210). It was found that from the quality assessment of safety indicators, the compliance rate of pathogens was generally higher than that of pollutants. The compliance rate was increasing year by year. The compliance rate of lead limit was 83.69% (272/325), that for methyl mercury and inorganic arsenic were >95.00%, and was 79.69% (259/325) for cadmium. Except for benzo[a]pyrene, the compliance rate of different production were different, and the difference was statistically significant (P<0.05), the compliance rate of instant aquatic products in inorganic arsenic, N-dimethylnitrosamine and polychlorinated biphenyls were highest, the prefabricate aquatic and other products in lead, methylmercury, chromium, N-dimethylnitrosamine and polychlorinated biphenyls were the lowest. Conclusion It needs to further improve the awareness of food safety and food standards by the enterprises, strengthen the trainings and improve the knowledge on food standards.