Objective To analyze the effect of micro-screw anchorage implant technology on periodontal health in patients with maxillofacial deformity. Methods A total of 70 patients with maxillofacial deformity who visited the Department of Stomatology, Affiliated Stomatological Hospital of Nanjing Medical University from January 2022 to January 2024 were selected, and they were divided into the control group and the observation group by the random number table method, with 35 patients in each group. The control group was treated with extraoral arch anchorage, and the observation group was treated with micro-screw anchorage. The clinical efficacy, treatment time, periodontal health, complication rate and satisfaction were compared between the two groups. Results The total effective rate of the observation group (94.29%) was higher than that of the control group (74.29%) (P <0.05). The treatment time of the observation group was shorter than that of the control group (P <0.05). The PLI, GI and SBI of the observation group after treatment were lower than those of the control group (P <0.05). The incidence of complications in the observation group (2.86%) was lower than that in the control group (22.86%) (P <0.05). The satisfaction rate of the observation group (91.43%) was higher than that of the control group (68.57%) (P <0.05). Conclusion Micro-screw anchorage has a good effect in the treatment of maxillofacial deformity. It can not only effectively improve periodontal health, but also reduce complications and shorten the treatment course, thereby comprehensively improving patient satisfaction.