Metropolitan areas in Indonesia, specifically Jabodetabek, are projected to continue experiencing population growth. This will result in increased water demand, which, if left unchecked, could lead to a water crisis. Additionally, the region faces persistent flooding issues. To mitigate these challenges, the Indonesian government proposes the creation of a coastal reservoir. However, a methodology for the pre-feasibility study of such reservoirs in Indonesia is currently lacking. This study addresses this gap by presenting a methodological framework encompassing hydrology and water allocation analyses as well as numerical modeling related to hydraulic and sedimentation aspects of coastal reservoirs. The methodology was designed to be adaptable based on data availability. Finally, this methodology was applied to a case study located at the Cisadane River estuary. The water allocation simulation showed that the reservoir can release an annual optimum discharge of 80.618 m3/s in wet years and 22.731 m3/s in dry years. Flood modeling demonstrated a modest impact on reducing early-hour floods, with a water level decrease of around 20–50 cm within 5 km of the reservoir. Furthermore, sediment modeling revealed varying sedimentation and erosion depths along the rivers, with approximately 62,300 m3/year settling in the reservoir.