Staphylococus aureus is a major agent of bacteremia in children in African where malaria is endemic and always presented with the same symptoms. The main objective of this study is to determine the co-infection of malaria and Staphylococcus aureus bacteremia in children less than 5 years using standard procedures from a major secondary health center in Ilorin, Kwara State and determine antibiotics susceptibility of S. aureus. A total number of 235samples blood from febrile children suspected of having bacteremia were screened, 138 of the children were females and 97 were males. A total of 39 (16.6%) with positive blood culture was recorded in this study and Staphylococcus aureus bacteremia (SAB) detected is 20.5%. Age distribution of bacteremia were 14.3, 17.4, 27.3, 13.5 and 14.3 % for children in the age group ≤1, 1-2, 2-3, 3-4 and 4-5 years respectively while SAB distribution were 24.4, 12.5, 22.2, and 66.6 for children in the age group 1 month-1, 1-2, and 4-5 years above respectively. Also, a total number of 148 (63%) have a positive malaria parasite test, co-infection of malaria and bacteremia detected in 18 children with 6 (33.3%) having SAB and malaria co-infection. Age distribution of co-infection of malaria and SAB were 33.3, 50, and 25% with no co-infection recorded in age group 3-5years. A total of 2 (25%) methicillin resistant Staphylococcus aureus were isolated. Antibiotic sensitivity profile shows that 62.5% of S. aureus were resistance to cefuroxime, 80% to cefepime and 100% sensitivity to augmentin, linezolid, teicoplanin, ofloxacin, gentamicin and vancomycin. Age is an important risk for development of SAB and prompt treatment with a suitable antibiotics is required to reduce mortality associated with bacteremia.