Human resource management is the key component for every organization. The empowerment of human resource is a strategic decision which in return affects the organizational productivity. The purpose of the present study is to examine the impact of HR empowerment through information technology, cultural dimensions and organizational knowledge with their impact on Muhammadiyah higher education productivity in Indonesia. To address this objective, a questionnaire was developed as a core instrument to collect primary data from the employees of Muhammadiyah higher education. A final sample of 138 respondents was collected for applying the structural equation modelling (SEM) approach with the factor analyses. Additionally, validity of the questionnaire was observed through three measures; namely Cronbach’s alpha, average variance extracted and composite reliability. Findings through structural equation modelling approach specify that all three dimensions of HR empowerment have shown their positive and significant influences on Muhammadiyah higher education productivity. However, this study is limited by various perspective. First, data is collected from Indonesia through employees of Muhammadiyah higher education only with limited generalizability of the findings. Second, the study has not discussed the combine effects of human resource empowerment on the overall productivity of Muhammadiyah higher education but with individual dimensions like cultural, information technology and knowledge factors. The findings can be meaningful to boost the performance and productivity of higher education while understanding its structural relationship between human resource development.