In spite of the ministerial requirement that public secondary schools in Kenya to develop and implement strategic plans to improve and efficiency in their operations, the implementation of the strategic plan has not been successful in many schools. Therefore, this study sought to evaluate the influence of organizational structure on the implementation of strategic plans in public schools. The research adopted a descriptive survey design and targeted 9 public secondary schools in Rongai Sub-County, Kenya from which a sample size of 112 respondents comprising school principals, heads of departments and teachers was drawn using both purposive and simple random sampling. Data was collected using questionnaires and was analysed using descriptive statistics and bivariate regression. The findings revealed that Organization Structure was significant in the implementation of the strategic plans. The study recommends more training for key stakeholders responsible for the implementation of the strategic plans in the schools.