Taking Qinghai-Tibetan Plateau ecological function conservation areas (EFCAs) as a case, priorities were set to climate change adaptation measures based on expert judgment by using the analytic hierarchy process (AHP). The results showed that the special funds of climate change of ecological function conservation, supporting projects to feed-animal balance control and the adjustment of industrial structure are the most important measures. Then, preferences were compared between decision makers, decision supporters and scientific researchers. The results showed that the difference is relevant to functions and their specific interest of the stakeholders. It is also proved that AHP is a useful and meaningful tool for preferring adaptation measures in the national climate change adaptation strategies.