Center for Quality Assurance (LPM), is in charge of coordinating, controlling, monitoring, assessing and developing the quality of academic activities. This institution is in charge:
- Center for Quality Standard Development
- Center for Audit and Quality Control
- Center for Students Assistance and Quality Development
Center for Research and Community Service (LP2M) is the center toimplement, coordinate, monitor and assess the implementation of research and community services. This center serves:
- Center for Research and Publishing
- Center for Community Service
- Center for Gender and Child Study
Besides the above-mentioned centers, UIN Walisongo also has non-structural institutions and centers, they are:
- Walisongo Mediation Center (WMC) is an institution in UIN Walisongo intended to build greater human capacity for peace and to improve the mechanism of conflict resolution in Indonesia. WMC mission is to contribute to the prevention and transformation of conflicts through education, training, research, and mediation service. WMC has collaborated with various institutions from within and abroad and has provided training and services for the various elements of society in Indonesia.
- Center for Islam and Javanese Culture Studies (PPIBJ) is the center that pays special attention to the study of Islam and Javanese culture. The institution reflects UIN Walisongo position in bridging between Islam and local culture and provides an appreciation for acculturation between Islam and the local culture.
- Walisongo Halal and Research Center (WHRC) is an institution intended as a research center for halal products. WHRC is expected to be a partner for Indonesian Ulema Council (MUI), Assessment Institute for Foods, Drugs and Cosmetics (LPPOM) and related offices in deciding the halal of a product.
- Walisongo House of Religious Moderation (RMB) is an institution intended to foster and improve religious tolerance in Indonesia, especially in Central Java. Walisongo house of religious moderation seeks to collaborate Islamic teachings and local wisdom by following the spirit of da’wah of the Walisongo (Islamic saints in Indonesia) in order to foster mutual respect and spread peace between religious communities.