Objective To investigate the effect of minimally invasive tooth extraction with micro-power system combined with comfort intervention in the treatment of patients with mandibular impacted wisdom teeth. Methods A total of 220 patients with mandibular impacted wisdom teeth were enrolled as research subjects and divided into an observation group and a reference group according to envelope method, with 110 cases in each group. The reference group was treated with traditional tooth extraction, and the observation group received minimally invasive tooth extraction with micro-power system combined with comfortable intervention. The perioperative related indicators (operative time, intraoperative blood loss and bone healing time), pain intensity at 1 week after treatment [visual analogue scale (VAS) score], fear level [children's fear survey schedule-dental subscale (CFSS-DS) score] and comfort level (evaluated by the general comfort questionnaire, including four dimensions: environmental, psychological, physical and sociocultural dimensions) were compared between the two groups, along with the occurrence of postoperative complications. Results The operative time, intraoperative blood loss and bone healing time of observation group were shorter or less than those of the reference group (P<0.05). After treatment, the pain VAS scores and CFSS-DS scores in both groups were lower than those before treatment, and the aforementioned scores in the observation group were lower than those in reference group (P<0.05). After treatment, the scores of environmental, psychological, physical and sociocultural dimensions in both groups were higher than those before treatment, and the scores in the observation group were higher than those in the reference group (P<0.05). The total incidence of postoperative complications in the observation group was lower than that in the reference group (P<0.05). Conclusion Minimally invasive tooth extraction with micro-power system combined with comfort intervention in the treatment of patients with mandibular impacted wisdom teeth can shorten the operative time and bone healing time, reduce intraoperative blood loss, alleviate pain and fear, improve patients' comfort level, and decrease the incidence of postoperative complications.