In this paper, two modelling systems used for the simulation of water resources management are compared. These modelling systems can be used in the implementation of the European Water Framework Directive or to perform any other kind of integrated assessment with regard to water resources management. In such investigations the use of models is inevitable, as integrated water resources management demands the survey of large areas as well as the inclusion of the different functions of the water cycle and water utilisation processes. Water quantity data provides important input for hydro-chemical, hydro-ecological or hydro-economic models. If no significant water resources management activities are realised in the basin under study, these data can be provided by simple rainfall-runoff models. If significant water resources management activities are realised or planned, the effects of these water resources management activities must be taken into consideration. Then, however, the use of water resources management models becomes necessary. Two such modelling systems, WRAP and WBalMo, are compared. Both have been designed for the development and revision of water resources management plans. Due to different approaches regarding the modelling routines the models lead to different results in the calculation of water quantities. By tracking the simulation algorithms, an understanding of the detected differences becomes possible. By adapting the spatial configuration of the modelled system, equivalent results can be obtained.