ABSTRACT Brain–computer interfaces based on electroencephalography (EEG) often exhibit unreliable performance in the classification of motor tasks. Recent research has shown that EEG source imaging (ESI) has the potential to outperform sensor domain approaches in various movement decoding tasks. However, ESI research to date has predominantly focused on the adult population, so its performance in youth with disabilities is unknown. In this study, we compared the offline classification performance of two ESI approaches (with and without modeling white matter conductivity anisotropy) to that of a sensor domain approach in the classification of left- versus right-hand movement execution and imagery tasks. Magnetic resonance images (MRI) were acquired from nine pediatric participants with brain lesions. Subsequently, cortical activity was recorded from 64 channels. MRI data were used to estimate participant-specific EEG sources. Various feature extraction and classification approaches were investigated in both sensor and source domains. Generally, ESI classification performance did not exceed chance levels and was statistically equivalent to sensor approaches except for isolated participants. However, ESI offered +9.61% improvement over the sensor domain (p = 0.031) in decoding motor execution in a participant with unilateral ventriculomegaly. Future research ought to delineate the specific task and participant characteristics which warrant the source domain approach.