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The nerve centre of this study was the critical role played by the head teacher in primary school management; students’ academic performance has persistently been poor.Factors leading to this dismal performance have not been adequately investigated and well understood in Mandera County, hence they is a need for this study. Therefore, the purpose of this study was to determine the leadership styles of the head-teachers and their impact on the students’ academic performance in KCPE in primary schools in Mandera County. The study was conducted in fifteen primary schools within the county. The researcher takes sample of 15 primary schools, hence 15 head-teachers, and 61 teachers and 239 students. The interest of the researcher to choose and study these schools is strongly prompted by their continued poor performance in KCPE. Data was collected using the questionnaires and interview schedules. The study used descriptive statistics such as percentages and frequency, which were used to analysis. The study intended to come up with policy guidelines that were to help improve the leadership styles of head teachers in primary schools. The study was further to contribute to the functions of knowledge for the present and future scholars. The major findings show a significant relationship between initiative structures of the head teachers towards improving leadership style which has impact on academic performance and finally there was a strong relationship between participatory traits of the head teachers and the management structures of the schools which has impact on the students’ academic performance. Based on these findings, it is recommended that to the school administration to cooperate from parents by holding regular meetings and working out strategic plans, to the ministry to in-service head-teachers through workshops. Finally to the teacher to be encouraged occasionally to review their own leadership styles and checks their impact on students’ academic performance.