An established resilient healthcare system is vital in any governmental structure to protect the public’s well-being during unexpected events such as occurrence of disasters. In the Philippines, barangay is the basic political unit with immediate access to the people affected by disasters. This study aims to design a framework to determine the resilience of the healthcare system at the smallest local government unit using the fuzzy analytic hierarchy approach (FAHP) approach. The FAHP is used to establish the contributing factors and sub-factors in the design of a resilient healthcare system. The final results show that disaster preparedness as the main priority factor with a rating of 44.77%. Service Continuity followed far behind at 16.60%, and then followed closely by Resources and Recovery Adaptation at 14.74% and 14.63%, respectively. Safety and Vulnerability came last in the prioritization ranking at 9.25%.