Jakarta, one of the most flood-prone megacities in Southeast Asia, experiences hydrometeorological hazards due to rapid urbanization, land subsidence, and extreme rainfall. The most vulnerable areas, Kampung Melayu and Bukit Duri, are densely populated neighborhoods along the Ciliwung River, a major urban waterway that overflows annually. These neighborhoods, serving as primary discharge zones for upstream floodwaters, are at high risk during the rainy season. Their low-lying geography, informal settlements, and limited infrastructure exacerbate their flood risk, making them crucial in Jakarta's flood mitigation strategies. This study examines the institutional coordination mechanisms that facilitate or hinder multi-agency collaboration in Jakarta's flood response and planning, specifically focusing on Kampung Melayu and Bukit Duri. The research was conducted in February, 17th 2025, involving a site visit and interviews with key stakeholders such as the Regional Disaster Mitigation Agency (BPBD), Water Resources Agency, community leaders, and representatives from the social and health departments. The study also documents the integration of digital governance systems, including SCADA (Supervisory Control and Data Acquisition), which plays a pivotal role in monitoring flood conditions and issuing early warnings. Several institutional gaps remain while the command center showcases a multi-agency effort to enhance urban resilience, including floodgate monitoring, pump station coordination, evacuation logistics, and volunteer mobilization. Authorities cited the 2020 flood as the most severe in recent memory, yet just two weeks after our visit, a significant flood event struck Jakarta once again. This raises critical concerns about the accuracy of forecasting, the responsiveness of inter-agency communication, and the city's ability to translate risk monitoring into actionable early responses. The study identifies three key challenges: (1) fragmentation in information sharing and institutional roles, (2) limited preparedness among vulnerable populations despite existing evacuation frameworks, and (3) difficulties in maintaining coordinated action across local, provincial, and community levels. It also underscores the crucial role of inclusive planning. This planning, especially for relocated populations, older people, and people with disabilities, is essential as they face logistical and social barriers during evacuation and recovery. It is imperative to consider all segments of the population in disaster management. The research proposes a scenario-based planning framework integrating participatory decision-making, real-time data flow, and multi-sectoral coordination. This innovative framework offers a promising path for Jakarta to transition to a more resilient, adaptive urban flood management system. Jakarta can significantly enhance its flood risk management by aligning institutional efforts through improved communication protocols, clearer role division, and community-driven preparedness. This study contributes to the broader discourse on public safety and urban resilience, offering insights applicable to other rapidly urbanizing and flood-prone cities across the Global South. Keywords: collaborative governance, institutional mechanism, flood risk mitigation, urban flood control