Within the complex operation in project management in the 21st century, the school heads play a very vital role in the management of school projects. However, the management of these projects has not been smooth. For example, in Mathira constituency there are many examples of stalled infrastructure projects, projects that have taken too long to complete and which eventually lead to escalating of the project cost, unsatisfied needs in the schools community that was supposed to benefit from the project and curriculum and co-curricular programs that have failed to take off. The general objective of this study was to determine the challenges faced by school heads in managing school projects in Mathira Constituency. The specific objectives of the study were; to determine whether school heads in Mathira Constituency have adequate project management skills to enable them effectively manage school projects; to establish the financial management challenges facing school heads in management of school projects in Mathira Constituency; to determine how the management of the project constraints affect the successful implementation of school projects in Mathira Constituency; to establish the stakeholder involvement challenges in management of school projects in Mathira Constituency and to establish the monitoring and evaluation challenges facing school heads in management of school projects in Mathira Constituency. The target population included all the thirty three (33) public secondary schools in Mathira constituency, Nyeri County. Data was collected using a semi-structured questionnaire where the principals, the members of the BoG and the teachers will be the respondents. Descriptive statistics such as the frequencies and percentages were used to analyse quantitative data while content analysis was used to analyse qualitative data.