Private land often encompasses biodiversity features of high conservation value, but its protection is not straightforward. Commonly, landowners’ perspectives are rightfully allowed to influence conservation actions. This unlikely comes without consequences on biodiversity or other aspects such as economic considerations, but these consequences are rarely quantitatively considered in decision-making. In the context of boreal mire protection in Finland, we report how acknowledging landowners’ resistance to protection changes the combination of mires selected to conservation compared to ignoring landowners’ opinions. Using spatial prioritization, we quantify trade-offs arising between the amount of landowners’ resistance, protected biodiversity, and financial costs in different conservation scenarios. Results show that the trade-offs cannot be fully avoided. Nevertheless, we show that the systematic examination of the trade-offs opens up options to alleviate them. This can promote the evaluation of different conservation policy outcomes, enabling better-informed conservation decisions and more effective and socially sustainable allocation of conservation resources.