Several previous simulation studies using various geochemical models have been carried out in several major analogue sites. The cases are beneficial when these studies provided the possibility of testing the geochemical models to be used to describe the migration of radionuclides in a future radioactive waste repository system. It was possible to interpret the complex transport behaviour of radionuclides such as uranium and thorium in an environment. We organize major natural analogue study sites from the previous literatures that provided information on the general geochemistry of the sites, in terms of groundwater composition and mineralogy. Also, we calculated aqueous speciation and the solid phases most likely to control their solubilities. The results obtained from the previous studies and this study vary depending on the tools used and on the conceptual models followed. Also, the results differed from the actual measured concentrations of trace metals or radionuclide analogues. The results obtained from these tests identify the main mathematical limitations of available geochemical models. However, the modelling results using a geochemical code with the thermodynamic database simulated well the observed behaviour of radionuclides, especially to identify the dominant processes controlling actinide mobilization and fixation. It was a useful outcome in terms of building confidence on the current geochemical tools to predict the concentrations of radionuclide analogues once the major geochemical characteristics were known. This study allows improving specific aspects of geochemical modelling using major natural analogue sites.