© 2016, The Author(s). Context: The legacy of human use of Mediterranean ecosystems results in spatial and temporal heterogeneity of resources for wildlife. Understanding wildlife use of these ecosystems may be improved by including information on ecosystem type, structure, and function extracted from remote sensing data. Objectives: To assess whether we can improve our understanding of wildlife-habitat use by including information on ecosystem type, structure and function. Methods: We tested whether remote sensing derived descriptors of ecosystem type, structure (tree cover and patch size) and function (productivity and stress) determine the habitat of stone martens (Martes foina), common genets (Genetta genetta), and European badgers (Meles meles) in southern Portugal. We linked radio-tracking data from five stone martens, five genets and eight badgers with aerial photography, and some spectra-selectivity to classify vegetation, its structure, productivity and drought stress. Results: Statistically-derived generalized linear mixed regression models using combinations of remotely sensed descriptors of ecosystem type, structure and function, performed better than single ecosystem type descriptors. Conclusion: Inclusion of information on ecosystem functioning in predictive models of habitat use is more informative than ecosystem type alone, suggesting functional relationships between wildlife and their habitat. However, inclusion of both ecosystem type and function maybe limited to finer spatial resolutions. Our results illustrate the untapped potential of remote sensing to provide detailed descriptors of habitat at adequate spatial scales, now that they are freely available and are systematically collected over space and time. This information adds useful insights on wildlife-habitat relationships under changing patterns of land use and climate.