Abstract The sedimentary prism of the central Pacific continental shelf of Colombia was affected by regional folding and faulting, and probably later mud diapirism, from the Late Miocene to the Holocene. Interpretation of high-resolution seismic lines (2 s/dt) revealed that the prism consists of 13 high-resolution seismic units, that can be separated into 5 seismic groups. Deposition of the prism and the associated stacking pattern, are probably the response to variable uplift and subsidence in a fore-arc basin that underwent important tectonic events by the end of the Miocene. Throughout the Pliocene, the continental shelf sedimentation was affected by the growing of a dome structure probable due to mud diapirism. This fact caused peripheral faults both normal and reverse that controlled the distribution of some of the seismic units. During the Late Pleistocene (Wisconsin stage?) a eustatic sea level fall caused the shoreline to advance about 50 km westward of its present position. Because of this eustatic sea level change, a strong fluvial dissection took place and is interpreted as the probable extension of the San Juan River to the south of the present day river mouth. Within this framework it is believed that the Malaga and Buenaventura Bays were the passageways of branches of the old drainage system of the San Juan River. The inner branch circulated through the present Buenaventura Bay and runs southward leaving the mark of an apparent valley identified in the seismic information in the eastern sector of the study area. This old fluvial valley and its filling material located in the present day inner continental shelf front of Buenaventura are postulated as important targets to find placer minerals such as gold and platinum.