A study was undertaken to determine the prevalence of Cryptosporidium spp. and Giardia spp. In sheep and goats in the triangular area (Shalatin – Abu- Ramaid-Halaeeb) Red Sea Governorate, Egypt, and investigate some risk factors. 374 faecal samples from sheep and goats were taken from clinically diarrhoeic and non diarrhoeic animals for examination, aged from 5 days to 1-year-old from September 2008 to August 2009. The prevalence of Cryptosporidium parvum oocysts was found to be 34 (15..88%)in sheep and 22(13.75%)in goats. Giardia duodenalis cysts were found in 10(4.67%) in sheep and 8(5%) in goats. Giardia duodenalis trophozoites were not detected in this study. Infection rates were peaked in the age group 15 d–3 months for Cryptosporidium Parvum (group 1 &2) and >3 to ≤ 6 months for Giardia duodenalis (group 2&3). The rate of infection was higher indiarrhoeic than non diarrhoeic animals and zero % in adult. The prevalence of both parasites were higher in samples taken during winter season than in samples taken during summer. Trials of treatment with some antibiotic drugs were carried out on some infected animals with Cryptosporidium parvum and concluded that paromomycin sulfate (100 mg/kg per day for 3-5 consecutive days) was the drug of choice in treatment of sheep and goats Cryptosporidium compared with other antibiotic drugs used. On the other hand trials of treatment with different anthelmintic drugs against natural infection with Giardia duodenalis revealed that Fenbendazole   (5 mg/ kg of body weight orally once daily for 3-5 days)was the drug of choice in treatment of sheep and goats Giardiosis compared with other anthelmintic drugs used.The treatment leads to the disappearance of symptoms, improving the health of infected animals. The study reports for the first time the occurrence of Cryptosporidium parvum and Giardia duodenalis in sheep and goats in the triangular area Red Sea Governorate. Cryptosporidium and Giardia parasites may be of a major epidemiological significance in lambs and kids, and suggests that naturally infected lambs and kids may be reservoirs of Cryptosporidiosis and Giardia infections for other animals and even for humans in this region.