A system, method, and computer program for detecting and isolating structural faults is provided. To detect and isolate structural faults, a plurality of sensed features that corresponds to sensor data from the monitoring sub-system and a plurality of estimated features that corresponds to the plurality of sensed features can be generated. Further, the plurality of sensed features and the plurality of estimated features can be compared to produce a plurality of residuals. From the plurality of residuals, at least one structural fault within the vehicle are determined and isolated for further use of maintenance decision support.