The prevailing education management systems in colleges and universities are antiquated, adversely impacting not only the administrative efficiency but also the formulation of faculty teaching plans and class schedules, as well as the management of student electives and credit accrual. This paper presents an innovation and optimization of the existing system, wherein education management processes are categorized into seven distinct modules. It delineates the flow and integration of heterogeneous data sources within the system, leveraging heterogeneous database technology as the foundational framework. Subsequently, we redesign heterogeneous computation scheduling and adaptation, enhancing distributed database allocation and query algorithms. The culmination of this research is the development of a novel pathway for the education management information system in higher education institutions. Upon empirical testing of the system proposed in this paper, we explore its practical implications through IPA analysis. User satisfaction is notably high in areas such as A4 invigilation information, A13 subjective grading of routine assessments, A14 querying and feedback on grades, and A15 remediation of failed courses, with performance ratings of 4.77008, 4.73981, 4.8961, and 4.86558 respectively. These indices predominantly reside in the “continue to maintain” and “oversupply” zones, indicating the substantial efficacy of the innovative college management information system introduced herein. This study significantly contributes to the standardization and intellectualization of college administrative processes, proposing new paradigms and methodologies for the integration of educational management and information technology within tertiary institutions.