Objective To analyze the effect of boot-shaped transverse palatal bar in the correction of scissors bite of the maxillary second molar. Methods A total of 40 patients with unilateral scissors bite of the maxillary second molar who received orthodontics treatment in the Department of Stomatology, Affiliated Hospital of Yanbian University from September 2019 to December 2023 were selected. According to the random number table method, they were divided into the control group and the intervention group, with 20 patients in each group. The control group was treated with traditional cross-elastics traction, and the intervention group was treated with boot-shaped transverse palatal bar. The model measurements, cephalometric measurements and treatment duration were compared between the two groups. Results There were no statistically significant differences in WU6, WU6’ and LU6 between the two groups before and after treatment (P>0.05). The ΔWU6 in the intervention group was smaller than that in the control group (P<0.05). There were no statistically significant differences in ΔWU6’ and ΔLU6 between the two groups (P>0.05). After treatment, the WU7 in the intervention group was higher than that in the control group, while the WU7’ was lower than that in the control group (P<0.05). The ΔWU7 and ΔWU7’ in the intervention group were higher than those in the control group (P<0.05). There were no statistically significant differences in SN-MP angle, PP-MP angle and U6-PP distance between the two groups before and after treatment (P>0.05). The ΔSN-MP angle in the intervention group was lower than that in the control group (P<0.05). There were no statistically significant differences in ΔPP-MP angle and ΔU6-PP distance between the two groups (P>0.05). The treatment duration in the intervention group was shorter than that in the control group (P<0.05). Conclusion Boot-shaped transverse palatal bar has a good effect in the correction of scissors crossbite of the maxillary second molar. Compared with traditional cross-elastics traction, it has shorter treatment duration and stable anchorage control.