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This paper addresses the challenges posed by Industry 4.0 and the COVID-19 pandemic, which necessitate digital transformation in educational institutions. It focuses on the specific issues of integrating enterprise information systems to facilitate this transformation. The solution proposed is the development of an integrated information system to manage operational processes within educational institutions. This system targets key domains including student admissions, academics, finance, and human resources, utilizing role-based access control (RBAC) and Single Sign-On (SSO) for efficiency and security. The methodology involves a collaborative effort under the Matching Fund program by the Ministry of Education, Culture, Research, and Technology of Indonesia. This collaboration includes the Universitas Islam Indonesia and the Salman Alfarisi Yogyakarta educational institution. The approach includes defining the project, collecting, and reviewing lessons, creating a repository of these lessons, and disseminating the findings. The project successfully developed and implemented an integrated information system, addressing the initial challenges and improving organizational efficiency in the participating educational institution. The system’s deployment covered multiple key operational domains, significantly digitizing the institution’s processes. This paper contributes valuable insights and best practices from the integration project, serving as a model for other universities and educational institutions. It showcases the potential of collaborative efforts in accelerating digital transformation in education, especially in the context of Indonesia’s vast network of universities and educational institutions.