Systems, methods, and non-transitory computing device readable media for determining an individualized orthodontic treatment index. One embodiment includes generating a target dental model by modifying an initial dental model, graphically marking dental references on the target dental model including assigning contact points between adjacent first and second teeth of the target dental model, generating a treatment outcome dental model representing the patient's dentition after at least a portion of the orthodontic treatment has been completed, mapping the dental references marked on the target dental model to the treatment outcome dental model, and calculating an individualized treatment index score for the treatment outcome dental model according to one or more differences between the target dental model and the treatment outcome dental model.