Post-earthquake damage state evaluation of ancient wooden buildings involves many impact factors and there are correlations and uncertainty among these factors. In order to improve the damage state assessment accuracy of post-earthquake ancient wooden buildings, fuzzy mathematics theory was employed to investigate this issue. Firstly, ancient wooden buildings were decomposed into three parts: subsoil, foundation and superstructure, and 13 indicators were selected for the evaluation factors based on their damage characteristics. Then, the weight coefficient vector was determined by hierarchy analytical process and the judgment matrix was constructed using membership function and analogy method. Two-phase three-level fuzzy comprehensive evaluation model was built. Finally, taking the Emperor Temple in Qingcheng mountain as an example, the developed model was applied to evaluate its damage state after Wenchuan earthquake. The results show that the evaluation method can reasonably and accurately assess the post-earthquake damage state of ancient wooden buildings, which can provide references to the post-earthquake repair measures of these buildings.