Sandwich Harbour forms a largely enclosed bay and extensive lagoon system that receives a limited subsurface, freshwater inflow from the Kuiseb River. It has been suggested that the Kuiseb River contributed more freshwater to Sandwich Harbour in the past, and that the river has since been displaced northwards towards Walvis Bay. Pollen and diatom analyses were carried out on a trial core from the central inshore region of the harbour to determine whether sufficient biological material for extensive studies had been preserved, whether the sediments were undisturbed and whether changes in salinity were evident. Pollen was not preserved in sufficient quantities to analyse but diatoms were abundant in the upper portion of the core. Diatom analysis indicated that the sediments were relatively undisturbed. The earliest sediments were dominated by a freshwater soil flora, and this was displaced by a marine littoral flora with brackish and freshwater diatoms increasing in frequency in the uppermost sediments. The increase in brackish forms is correlated with the formation of a sandbar across the harbour at the end of the last century. Further analyses of the present day flora and sediment cores from different parts of the harbour should provide a clear indication of the history and development of the area, especially the role played by the Kuiseb River.