Abstract:Firstly, the relevant theories of agricultural science and technology innovation and project evaluation are summarized. The paper analyzes the application form of the new project, and carries on the case analysis, and puts forward the innovative evaluation index. Through the expert interview, the paper further adjusts the index factors and designs the questionnaire. After scoring the data of the experts, the index is verified by structural equation model, and the nine first level indexes and thirty-five second level indexes are obtained. On the subjective level of analysis method and the objective entropy method based on using hierarchy entropy combination weighting method to get the index weight of discovery: the method and mature maximum deviation of combination weighting method with a high degree of correlation and quantitative assessment of the price with the actual results of the peer review results have high similarity.