Mercury usage in Artisanal Small Scale Gold Mining is a major anthropogenic source of mercury in the environment. In this study, mercury pools and fluxes have been established for Ghana, which has a large ASGM sector, based on estimated losses of mercury to the environment, deposition calculated with GLEMOS, a global long-range transport model for mercury in air, and mercury measured in soils and water in Ghana. A model for mercury in soils and water of Ghana with a resolution of 5 × 5 km2 and a monthly or yearly time step has been developed to assess the regional increase in soil and water concentrations that can be attributed to anthropogenic sources and to simulate scenarios into the future. The model has been calibrated to reproduce present-day mercury concentration in the soil (average 0.0193 mg kg−1) with current deposition calculated with the long-range transport model and past years’ deposition based on a scenario for the historic development of the mining activity. This calculation gives an average increase in soil concentrations from anthropogenic sources of 22%. The model gives a fair description of the regional differences in soil concentrations but underestimates concentrations in regions with intense mining activity and overestimates concentrations in regions with less mining when using deposition from the long-range model as input.