This study is the first assessment to evaluate the interactions between river discharges, tides, and storm surges and how they can drive compound flooding in the Kapuas River delta. We successfully created a realistic hydrodynamic model whose domain covers the land–sea continuum using a wetting–drying algorithm in a data-scarce environment. We then proposed a new method to delineate compound flooding hazard zones along the river channels based on the maximum water level profiles.