Nam Dinh province in Red River Delta, Vietnam, is an endemic area for the human liver fluke Clonorchis sinensis, but little is known about its occurrence in the fish intermediate host in this region. A cross-sectional study was carried out to identify fish-borne zoonotic trematodes (FZT) species diversity and to estimate the prevalence and infection densities of FZT in three major types of fish: cultured species and self-recruiting species from family ponds and wild-caught species from irrigation canals in Nam Dinh province. A total of 714 wild-caught fish from canals and 829 fish from family ponds were examined for FZT infection. Only a single fish from a pond was infected with Cl. sinensis. The intestinal fluke Haplorchis pumilio was very common and found in more than 50% of fish irrespective of origin. Four other intestinal FZT species were found at low prevalence (<4.0%) except Procerovum varium, which was found in 14.4% of wild-caught fish. There was no significant difference (p > 0.05) in FZT prevalence in cultured fish (64.3%) compared with wild-caught fish (68.9%), nor between cultured fish species (65.1%) and self-recruiting species obtained from ponds (58.1%). The prevalence of FZT in silver carp (Hypophthalmichthys molitrix) (82.7%), grass carp (Ctenopharyngodon idellus) (76.9%), and mrigal (Cirrhinus mrigala) (63.8%) was significantly higher than that in rohu (Labeo rohita) (49.1%) (p < 0.001). The density of FZT metacercariae in fish from canals (0.56 metacercariae/g) was significantly higher (p < 0.001) than that in fish from ponds (0.03 metacercariae/g). The frequent occurrence of intestinal flukes in all fish types indicates that wild-caught and cultured fish are equally at risk of infection with FZT, particularly in species commonly used in Nam Dinh to prepare raw fish dishes. These results underscore the need for greater awareness of the risk from raw fish dishes among public health agencies and consumers.