An electromagnetic energy delivery system includes a set of radio frequency channels; each channel configured to receive a set of reference signals. Each channel further includes a compensation component and a phase-locked loop component. The compensation component can be configured to determine a phase difference between at least a subset of the reference signals; compare the phase difference with a predetermined reference phase difference; and determine a reference signal compensation offset value based on the comparison of the phase difference and the predetermined reference phase difference. The phase-locked loop component can be configured to generate a phase-shifted signal wherein the phase shift is based on at least the reference signal compensation offset value.