A clear understanding of processes at multiple scales and levels is of special significance when conceiving strategies for human–environment interactions. However, understanding and application of the scale concept often differ between administrative-political and ecological disciplines. These mirror major differences in potential solutions whether and how scales can, at all, be made congruent. As a result, opportunities of seeking “goodness-of-fit” between different concepts of governance should perhaps be reconsidered in the light of a potential “generality of mis-fit.” This article reviews the interdisciplinary considerations inherent in the concept of scale in its ecological, as well as administrative-political, significance and argues that issues of how to manage “mis-fit” should be awarded more emphasis in social-ecological research and management practices. These considerations are exemplified by the case of reindeer husbandry in Fennoscandia. Whilst an indigenous small-scale practice, reindeer husbandry involves multi-level ecological and administrative-political complexities—complexities that we argue may arise in any multi-level system.Electronic supplementary materialThe online version of this article (doi:10.1007/s13280-015-0757-2) contains supplementary material, which is available to authorized users.