Resting-state electroencephalography pre-processing methods in machine learning studies into Parkinson’s disease classification vary widely. Here three separate data sets were pre-processed to four different stages to investigate the effects on evaluation metrics, using power features from six regions-of-interest, Random Forest Classifiers for feature selection, and Support Vector Machines for classification. This showed muscle artefact inflated evaluation metrics, and alpha and theta band features produced the best results when fully pre-processing data.