The present study was aimed to determine the scolicidal effect of stem and root alcoholic extract of Punica granatum L. (Pomegranate) on the viability and fatty acids content of Ecinococcus granulosus protoscolices. The study elucidate the scolocidal effect of both stem and root extracts. Its seemed that the scolocidal effect of root extract was higher than that of stem extract ie. LC50 and LC90 of stem extract were 5 and 9 mg/ml respectively while LC50 and LC90 of root extract were 3 and 8 mg/ml respectively. GLC analysis of E. granulosus protoscolices was stated presence of nine fatty acids esters, which were Lauric (C12:0); Myrisitic (C14:0); Palmatic (C16:0); Stearic (C18:0); Archidic (C20:0); Behenic (C22:0), which were saturated fatty acids, and Oleic (C18:1); Linoleic (C18:2); Linolenic (C18:3) which were unsaturated fatty acids. Treating E.granulosus protoscolices with LC50 of pomegranate stem bark was showing slight and swing effect on fatty acid content, while treated the protoscolices with LC50 of root bark were resulted in obvious increase in short length fatty acids like Lauric, Myrisitic and Palmatic in compare with control group. In contrast the long chain fatty acids concentration like Oleic, Linoleic and Linolenic were decrease.