This research studied the relationship between student's gender and academic performance in computer science in New Bussa, Borgu local government of Niger state. Questionnaire which consisted of 30 multiple-choice items drawn from Senior School Certificate Examination past questions as set by the West Africa Examination Council in 2014 multiple choice past question was used as the research instrument. The questionnaire was administered to 275 students from both private and public schools in the study area. The students' responses were marked and scored, and afterward analysed using independent t-test. The results of the study showed that even though the male students had slightly better performance compared to the female students, it was not significant. This better performance was found to be pronounced in the private school which was shown to possess the best male brains found in the study area. Based on the findings of this study, recommendations were made. Parents are encouraged to provide the right education they can afford for their children irrespective of gender. Also, there should be a deliberate Federal Government policy to encourage absorbance of female students into further study in computer science. Furthermore, it was recommended that stake holders in the education industry should make use of these findings and try to research into ways of making gender sensitive policies.