Power conversion systems, control apparatus, methods and computer readable mediums to operate a multiphase multilevel inverter that includes M inverter phase leg circuits that individually include N inverter stages with corresponding stage outputs connected in series between a reference node and a corresponding inverter phase output node, M being greater than 2, N being greater than 2, in which the stage outputs of a selected set of M of the inverter stages are bypassed, where the selected set includes a single inverter stage from each of the inverter phase leg circuits, and the selected set of inverter stages are connected to secondaries of a phase shift transformer at M different phase relationships to control harmonic distortion in a current of the transformer primary in response to a suspected inverter stage fault.