Incised valleys are commonly investigated based on outcrop, modern setting and seismic data, which are often limited by data availability, especially for broad (ca >100 km wide) shelf settings. Consequently, few have described complete depositional systems of the incised valleys, especially those linked to their corresponding modern rivers in a source-to-sink framework to determine comprehensive controlling factors. This study documents Late Quaternary incised valleys and their characteristics in the Balingian – Central Luconia shelf based on regionally-extensive three-dimensional seismic data, two-dimensional high-resolution seismic data and boreholes. The three-dimensional seismic data show that the main Tatau incised valley and tributary Suai incised valley fed the Tatau–Suai shelf-edge delta. The Tatau incised valley is interpreted as the main incised valley based on its broader width, thicker infill, two-tier stratigraphic architecture and its larger drainage basin area compared to the tributary Suai incised valley. The Tatau incised valley shifted its direction towards an active tectonic lineament (West Baram Line) and bypassed sediments to the deep-water via a series of upper slope channels. The Tatau incised valley system comprises the following elements: (i) an upstream segment characterized by rivers dissecting an uplifted hinterland comprising Neogene sedimentary rocks, humid-tropical vegetation, monsoonal climate, extremely high river discharge and sediment supply; (ii) a midstream segment comprising an emergent, vegetated (tropical rainforest to mangroves) and relatively narrow (ca 150 to 200 km wide) shelf, which was characterized by basinward-increasing, tectonically-driven accommodation space, valley incision and deposition; (iii) a downstream segment with increasing tidal-influence where the Tatau and its tributary valley merged; and (iv) a short (15 to 20 km), narrow (10 to 15 km), tectonically-controlled shelf-edge delta and channelized upper slope. This study demonstrates the value of documenting an incised valley system in the context of its broader source-to-sink setting, which may provide a useful analogue for ancient incised valleys in comparable geological settings.