This paper aims to build a system of innovation and entrepreneurship education model in colleges and universities. Focusing on the analysis of measurement variables and structural variables in SEM, the evaluation model of college innovation and entrepreneurship education is constructed under the analysis process based on the structural equation model. The path diagram of the standardized solved structural equation model of practice teaching evaluation is outputted through software correction, and the standardized weights of evaluation are determined by combining the structural equation of college innovation and entrepreneurship practice teaching quality evaluation. Apply the evaluation principles to test whether the evaluation model is reasonable. By analyzing the form of innovation and entrepreneurship teaching, the evaluation is conducted according to the structural equation formula to find out the shortcomings in practice for improvement and refinement. The results show that in the dimension of practical teaching preparation, (H1) corresponds to effect coefficients of 0.47, 0.47, 0.60 and 0.53, and the percentages of students who receive innovation and entrepreneurship education courses very systematically are 3.5%, 5%, 6% and 9%. Most of the students were very satisfied and satisfied with the innovation and entrepreneurship courses, with 45% and 40%.