Objective:To observe the pathological effect,the traditional Chinese medicine(TCM) syndrome efficacy and the mechanism of Weifuchun in treating gastric intestinal metaplasia of chronic atrophic gastritis. Methods 48 patients with chronic superficial gastritis(CSG)and 110 patients with gastric intestinal metaplasia(GIM)were divided into the CSG and GIM group respectively. Then the patients in the GIM group were randomly divided into the GIM-control and GIM-treatment group according to the different expression of sonic hedgehog (Shh) and Wnt signaling pathway protein (Wnt3A),55 cases in each group. The GIM-control group was orally treated with folic acid tablets,and the GIM-treatment group was orally treated with Weifuchun and folic acid tablets,with a course of 6 months. The pathological grade of GIM,TCM syndrome efficacy and expression of Shh and Wnt3A in the two groups were compared.  Results: ①During the trial,21 cases fell off in the GIM group and no case fell off in the CSG group,a total of 89 cases finally completed the test. ②Before the intervention, the Shh was weakly expressed in the GIM group, but strongly expressed in the CSG group,with statistically significant difference(P<0.05). Before the intervention, the Wnt3A expression in the GIM group was obviously higher than that in the CSG group,with statistically significant difference(P<0.05). ③For the comparison between groups after treatment,the GIM grade of the GIM-treatment group was obviously improved compared with the GIM-control group(P<0.05). ④The total effective rate of TCM syndrome was 85.42% in the GIM-treatment group and 36.59% in the GIM-control group. For the comparison of the TCM syndrome efficacy between groups,the effects of the GIM-treatment group were significantly better than those of the GIM-control group(P<0.05). For the comparison between groups after treatment,the total score of TCM syndrome in the GIM-treatment group was obviously lower than that in the GIM-control group(P<0.05). ⑤For the comparison between groups after treatment,the Shh expression in the GIM-treatment group was significantly higher than that in the GIM-control group,while the Wnt3A expression in the GIM-treatment group was significantly lower than that in the GIM-control group(P<0.05).  Conclusion: Weifuchun can improve TCM syndromes of GIM patients and alleviate the pathological grade. The mechanism may be associated with the regulation of Hh-Wnt signaling pathway.