Objective To explore the effect of micro-screw anchorage implant technology in the orthodontic treatment of patients with maxillofacial deformity. Methods A total of 60 patients with maxillofacial deformity who underwent orthodontic treatment in Jinsha County Chinese Medicine Hospital from January 2021 to June 2024 were selected as the research subjects, and they were randomly divided into reference group and experimental group, with 30 patients in each group. The reference group was treated with conventional maxillary transpalatal arch anchorage, and the experimental group was treated with micro-screw anchorage implant technology. The anterior teeth retraction value, lateral soft tissue retraction degree, periodontal health indicators and complications were compared between the two groups. Results The value of anterior teeth retraction in the experimental group was higher than that in the reference group, and the difference was statistically significant (P <0.05). The score of lateral soft tissue retraction degree in the experimental group was higher than that in the reference group, and the difference was statistically significant (P <0.05). The GI, SBI and PLI in the experimental group after treatment were better than those in the reference group, and the difference were statistically significant (P <0.05). The incidence of complications in the experimental group was 3.33%, which was lower than 13.33% in the reference group, and the difference was statistically significant (P <0.05). Conclusion The effect of micro-screw anchorage implant technology in orthodontic treatment of patients with maxillofacial deformity is definite, which can not only improve the value of anterior teeth retraction and the degree of lateral soft tissue retraction, but also effectively improve the periodontal health indicators and prevent the occurrence of related complications. It is worthy of clinical application.