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Research has demonstrated concussion likely causes autonomic dysfunction leading to exercise intolerance. To measure improvement in exercise intolerance due to suspected dysautonomia associated with protracted concussion recovery, using objective measurements on a Buffalo Concussion Treadmill Test (BCTT) following participation in a prescribed exercise program. This is a retrospective cohort study of 101 patient charts post-concussion. Exercise intolerance was assessed using a BCTT to identify suspected dysautonomia and an exercise prescription was provided using guidelines for treating concussion-associated exercise intolerance. Patients without symptom improvement and/or inability to achieve 80–85% of age-expected maximum heart rate (HR) without symptom exacerbation received a repeat BCTT. Twelve patient charts met inclusion criteria and were included in data analysis. There were significant improvements from pre-intervention to post-intervention testing in: maximum BCTT stage mean scores (p =.02); maximum HR mean scores (p =.01); prescription HR (RxHR) mean scores (p =.01); and HR delta (HR $$\delta $$ δ) mean scores (p =.00). Maximum stage, HR threshold, RxHR, and newly identified HR delta (HR $$\delta $$ δ) are potential objective measurements of progress for dysautonomia treatment post-concussion. Future studies are indicated to create a tailored protocol in the management of protracted concussion-associated dysautonomia. [ABSTRACT FROM AUTHOR]