Little tuna (Euthynnus affinis) is an important economics commodity consumed daily. This study aims to identify the type of endoparasites that infect little tuna (E. affinis), calculate and analyze the prevalence and intensity of endoparasitic helminth that infect E. affinis in Fish Auction Place Muncar, Banyuwangi Regency and Panarukan, Situbondo Regency. The method used in this research is a survey method by sampling at the research location directly. Totally 150 samples were taken, three times. The parameters of this study are the prevalence and intensity of endoparasitic helminth. The results showed that the endoparasitic helminths which infecte little tuna were larvae of Anisakis simplex, Rhadinorhyncus cololabis and Rhipidocotyle sp. The prevalence level of little tuna endoparasite helminth in Fish Auction Place Panarukan was 51.11% which is frequent while in FAP Muncar was 47,78 % which is general. Intensity of endoparasite helminth in FAP Panarukan is higher, which was 3.86 where as in Fish Auction Place Muncar was 3.37, both are in low category.