Individuals with anterior cruciate ligament reconstruction (ACLR) exhibited earlier recruitment of larger MUs with lower firing rates at both absolute and mass-normalized recruitment thresholds in their involved limb when compared with contralateral and control limbs. Individuals with ACLR had lower corticospinal excitability and lower contralateral hemisphere motor cortex activations, which were weakly associated with lower firing rates as larger motor units were recruited. Reduced excitatory cortical drive may contribute to quadriceps motor unit impairments and persistent quadriceps weakness after ACLR.