Large-scale spatial planning requires careful use and presentation of spatial data as it provides a means for communication with local stakeholders and decision makers. This is especially true for endangered species, such as the badger (Meles meles) in the Netherlands. To effectively mitigate the badger's traffic mortality in an area, two types of tools are needed. The first one estimates the probability of a successful road crossing for individual animals. The second tool is GIS-based and not only models the movement patterns of animals but also estimates an animal's daily number of road crossings. With data on population size as well as on road and traffic characteristics, a combination of both tools provides a measure of the mortality risk roads pose to wildlife in an area. Such estimations proved to be invaluable in a planning process with local inhabitants in the municipality of Brummen (the Netherlands), where ecological as well as safety problems appear. Our study demonstrates the applicability of GIS tools in balancing ecological consequences of road network options with a different distribution of traffic flows over the area in spatial planning and ecology.