Today, obesity and overweight have become a global epidemic, which is associated with limitations in cognitive and motor functions. The purpose of the current research was to compare the effects of a superbrain yoga and aerobic training course on the cognitive performance and motor proficiency of overweight 10-12-year-old boy students in Isfahan city. The current research is a semi-experimental type of research that was carried out using the pre-test-post-test design of random groups in the field during 16 practice sessions. 36 students who met the conditions for entering the present research were selected and randomly divided into three groups of 12 (aerobic, superbrain, and control). To measure motor function, the short form of the Bruininks-Oseretsky test of motor proficiency, and the cognitive function of the participants, the revised form of the Wechsler Intelligence Scale IV was used. To analyze the data, a composite analysis of variance and Tukey's post hoc test were used. The results showed that a course of aerobic and superbrain training had a significant effect on improving the cognitive and motor functions of the participants (p≤0.05). Furthermore, there was no statistically significant difference between the aerobic and Superbrain groups in the cognitive function score (p≥0.05), but a statistically significant difference was observed in the motor function score in favor of the Superbrain training group. According to the findings, to improve cognitive function, the use of two training methods, aerobic and superbrain, is recommended, and to improve motor function, the use of superbrain movements can be considered for the target population.