Mercury is a global neurotoxicant especially dangerous in wetlands and newly flooded areas which can be sites of enhanced monomethylmercury, a form of mercury that can be readily biomagnified. The study was conducted in the Okavango Delta, Botswana, a wetland ecosystem characterized by both permanent and seasonal floodplains. Because of the biogeochemical cycling properties of mercury it is expected that wetlands can potentially be sites of elevated levels of monomethylmercury which hold potential threats for both the subsistence fishing communities as well as crocodiles. Samples from individual crocodiles (Crocodylus niloticus), fish (Clarius gariepinus, Oreochromis andersoni, Serranochromis angusticeps and juvenile Tilapia sp.), macrophytes (Nymphaea sp.) and bottom channel sediments were collected from the Delta and analysed for Mercury levels. The results showed significant evidence of mercury biomagnification with mean concentrations for fish and crocodiles an order of magnitude higher than macrophytes and sediment. This exploratory study presents evidence for mercury biomagnification in the Okavango ecosystem.