Gastrointestinal parasites of domesticated animals, especially in animals with traditional husbandry management cause reduction in production and performance of them. Aim of our study was to determine prevalence of gastrointestinal parasites in indigenous camels, with traditional husbandry management that have no direct contact with other livestock. This study was carried out between Kerman and Yazd provinces of Iran, midsummer 2011. Fecal samples of 100 randomly selected camels of all age and sex, collected directly from their rectum. The fecal samples were examined by direct smear, simple flotation technique, centrifugal sedimentation technique, and McMaster egg counting technique and fecal culture to identification and determine the burden of parasites in different age groups. Nematode eggs and Eimeria oocysts were found (64 %) and (24 %) in fecal samples respectively. Parasite eggs that observed in camel feces were belong to Nematodirus spp. (52 %), Trichostrongyle type eggs (49 %), Haemonchus spp. (38 %), Trichuris spp. (14 %) Marshallagia spp. (10 %) and Eimeria cameli (24 %), the age of infected camels with helminthic infections was significantly higher than non-infected camels (p < 0.05), there was also a significant correlation between age and severity of coccidiosis (p < 0.05). Camel calves and camels below 5 years old were more infected with the Eimeria sp. than older ones. This study revealed gastrointestinal parasites is a major problem of indigenous camels with traditional husbandry, so parasite control programs must be established for increasing the productivity of this useful animal and industrial system for breeding camels recommended to increase productivity of them, especially where harsh climatic condition affected other livestock.