ABSTRACT. Objectives: Mortality and morbidity due to diarrheal diseases among children below the age of five has been increasing especially in the developing countries. This infection has not got attention like other health issues at national or regional levels. Documenting the risk prevalence and factors that influence the occurrence of the diarrheal diseases help to inform the and to develop preventive strategies for the county of study and the country at large. Results: There was high prevalence of gastro intestinal protozoan infection with 34(28.3%) children infected with either Entamoeba histolytica, Giardia lamblia or both (co infections). Female children were 2.1 times less likely to be infected with gastro intestinal protozoa than their male counterparts, though not statistic ally different (P=0.392). Keywords: Gastro intestinal protozoans, diarrhea, children under 5 years