Water is the principal limiting resource in Australian broadacre farming, and the efficiency with which farmers use water to produce various products is a major determinant both of farm profit and of a range of natural resource management (NRM) outcomes. We propose a conceptual framework based on multiple water use efficiencies (WUEs) that can be used to gain insight into high-level comparisons of the productivity and sustainability of alternative farming practices across temporal and spatial scales. The framework is intended as a data aggregation and presentation device. It treats flows of water, biomass and money in a mixed farming system; economic inefficiencies in these flows are tracked as they are associated with a range of NRM indicators. We illustrate the use of the framework, and its place in a larger research programme, by employing it to synthesise the results from a set of modelling analyses of the effect of land use choices on long-term productivity and a range of NRM indicators (frequency of low ground cover, deep drainage, N leaching rates and rate of change in surface soil organic carbon). The analyses span scales from single paddocks and years to whole farms and have been carried out with the APSIM and GRAZPLAN biophysical simulation models and the MIDAS whole-farm economic model. In single wheat crops in one study, different land uses in preceding years affect grain yield primarily by affecting the harvest index. When the scale changes to cropping rotations, the critical factor affecting overall water use efficiency is found to be the proportion of stored soil water that is transpired by crops. When ordinated in terms of their water use efficiencies, a set of 45 modelled rotation sequences at another location are differentiated mainly by the proportion of pasture in the rotation; when rotations are ordinated using key NRM indicators, the proportion of lucerne pasture is the main distinguishing factor. Finally, we show that for whole crop-livestock farms at three different locations across southern Australia, the pattern of water use efficiencies in the most profitable farming systems changes in similar ways as cropping proportion is altered. At this scale, land use choices affect multiple water use efficiency indices simultaneously and commodity prices determine the balance of the resulting economic tradeoffs. Limitations to the use of the WUE framework arising from its relative simplicity are discussed, as are other areas of farming systems research and development to which it can be applied.