The aim of this research is to analyze the causes and consequences of the phenomenon of isomorphism in universities in the country using the fuzzy cognitive map method. The present research is an exploratory research in terms of its applied purpose in terms of data collection. This research is also a mixed research type and is based on qualitative and quantitative research. The statistical population of the research is university professors and managers who were selected using a purposive sampling method and based on the principle of theoretical adequacy. The data collection tool in the qualitative part is an interview, the validity and reliability of which was confirmed using content validity and theoretical validity and the intra-coder and inter-coder reliability methods. The data collection tool in the quantitative part is a questionnaire, the validity and reliability of which was confirmed using content validity and test-retest reliability. Qualitative data were analyzed using the content analysis method and coding with MAXQDA 2020 software, and quantitative data were analyzed using the fuzzy cognitive map method. The findings of this study indicate that the attempt to impose the functions of academic discipline, the transformation of administrators from facilitators of creating an atmosphere of deep learning and deep thinking to administrative controllers, the university's departure from educational and research axes to administrative and executive axes are the most important factors in the emergence of the isomorphism phenomenon in universities. Also, the disappearance of the flow of innovation, dynamism and creative spirit of universities, the transformation of academics into a tool for expanding bureaucracy, and the lack of effective involvement of the academic community in the country's problems were identified as the most important consequences of the isomorphism phenomenon in universities.