Through recognizing the risking factors of industrial chain and selecting appropriate evaluation method, the index system on evaluating risking factors including market risk, natural risk, contact risk and efficiency risk in industrial chain is constructed, 26 weighting indicators under the four layers are set up. Taking regions inhabited by ethnic groups in Wuling Mountain as an example, the risking factors of agricultural industrial chain in the area are analyzed by adopting the FAHP. The influencing degree of each risking factor on credit risks is analyzed. The results assume that with the market risk, contract risk. natural risk and efficiency risk. The natural risks become the principal risk of agricultural industrial chain and it should be paid much attention to. The low credit risk is a major factor that causes the contract between enterprise and rural households. The flood, pests, diseases and disasters also should be paid high attention to that is regarded as risking factors. The risking factors that come from the efficiency risk layer, for example, the unequal profit distribution among enterprises has little effect on enterprises in industrial chain. The research results provide evidence for stipulating risk prevention measures.