Raw milk and milk products could be contaminated with bacterial pathogens such as S.aureus, which could be transmitted to human causing severe illness. In order to throw the light on the prevalence as well as molecular typing of S.aureus isolated from raw milk and milk, a total of 202 samples of raw milk (n=122) and milk products (n=80) were collected from Ismailia, Port-said and Suez Governorates, Egypt. The collected samples were subjected to bacteriological examination. The prevalence of S. aureus was (14%) in raw milk samples and (5%) in milk products samples. Antimicrobial susceptibility for isolated strains was carried out where (85.7%) of the isolated strains were sensitive to Azithromycin. PCR protocol was used for detection of Spa, Coa, Sea, Seb, Sec, Sed and See genes. Spa gene and Coa gene were detected in (90%) and (80%) of the tested S.aureus strains, respectively. Concerning S.aureus enterotoxins genes, 40% of the tested strains were positive for Sed gene, while 30% were positive to See gene. The combination of both phenotypic and genotypic analysis is a valuable diagnostic tool for identification of S.aureus in raw milk and its products.