Background: To identify the problem or challenges that were facing to implement the school health education program in Male’ and to identified the current situation in Maldives at school level. What were the things that can be done to solve or how we can overcome from those challenges? Was identified the school staff opinion about those challenges and their overview to solve those challenges and problem. Aim: The research was carried out to identify the challenges that are faced by school in implementing school health program among the schools in Male’ city. Method: This cross-sectional descriptive study was conducted among the schools in Male’ city. 18 schools out of 36 schools from government and non-government, were selected randomly as the sample of the study. The data was collected using a structured questionnaire. Result: The major challenge which is faced by the schools in implementing the health education program is insufficient resources such as facilities, budgets etc. and also, time constraints (write the % here) to conduct health education program in the schools. Though, more than 50% agreed that they were getting enough support from the government and non- governmental organization for implementing the health education program, (40%) schools said that they did not get enough help from other relevant sectors and parents. According to the results of the study, 50% of the schools has school health policy and implemented the policy effectively. Conclusion: The study reviled that, there were many challenges faced by the schools in Male’ city in implementing schools health education program. The challenges include lack of resources, support from other sectors, parents and also time constraints. Therefore it is recommended to assess the situation further and provide the necessary resources and training to build the capacity of the schools in conducting health education program effectively.