Phase error in MR imaging is corrected in real time by providing adaptive RF pulses and corresponding adaptive magnetic field gradients to mitigate the effect of phase error in the imaging subject. A real time phase error map is obtained, and then adaptive RF pulses and corresponding field gradients are applied that remove the problematic effects of the phase error. Depending on details of the MR imaging mode being employed, there are several ways this removal can be done. Phase error can be cancelled by providing RF pulses that make the phase in the imaging subject uniform. Another approach is to make the adaptive RF pulses insensitive to the phase errors that are present.