In order to assess the contamination of edible marine organisms in Quanzhou and Xinghua Bays, Fujian Province, China, concentrations of organochlorine pesticides (hexachlorocyclohexane isomers or HCHs and dichlorodiphenyltrichloroethane isomers/derivatives or DDTs) and heavy metals (Cu, Pb, Zn, As, Cr, Cd, Ni and Hg) in 13 species collected from different sites in the bays were analyzed by GC-ECD and ICP-MS. The concentration of the sum of DDTs exceeded that the sum of HCHs in the samples. Most of the organisms showed higher levels of DDTs than the first level criterion (10 ng/g) for marine biological quality in China (GB 18421-2001) but conformed to the first level criterion (20 ng/g) for HCHs. The estimated mean daily uptake of pesticides was below the level for minimal risk to the consumers. The levels of Cd, As and Pb in most organisms from both bays were markedly elevated and above the recommended legal limits for human consumption. Our results showed the need for routine monitoring of marine species contamination to ensure public and environmental health.