Objective To investigate the clinical efficacy of micro-ultrasonic technology in the treatment of incomplete calcified root canal in the middle and upper molar. Methods A total of 100 patients (100 teeth) with incomplete calcified root canal in the middle and upper molar were selected as research objects. Patients were divided into control group and observation group by random number table method, with 50 cases (50 teeth) in each group. The control group was treated with traditional root canal therapy, while the observation group was treated with micro-ultrasound technology. The expansion rate of root canal orifice, expansion rate at the middle one-third of root, expansion rate at the apical third of root, average expansion time for single root canal, Visual Analogue Scale (VAS) scores during the perioperative period (1 day before operation and 1, 3 and 7 days after operation) and postoperative complications were compared between the two groups. Results Compared with the control group, the observation group had higher expansion rate of root canal orifice, expansion rate at the middle one-third of root, expansion rate at the apical third of root, and shorter expansion time for single root canal (all P<0.05). On postoperative 1, 3, and 7 days, the VAS scores of the observation group were lower than those of the control group, with statistically significant differences (all P<0.05). The total incidence of postoperative complications in the observation group (4.00%) was lower than that in the control group (20.00%), with statistically significant differences (P<0.05). Conclusion Compared with the traditional root canal therapy, micro-ultrasound technology can achieve better therapeutic effect in the treatment of incomplete calcified root canal in the middle and upper molar, which has the advantages of higher expansion rate of root canal orifice, shorter expansion time of root canal orifice, fewer complications and mild pain, and is worth of promoting and applying.