Improved motion correction for magnetic resonance imaging is provided. An MR imaging method provides a first sequence of MR images and a second sequence of MR images where: 1) the two sequences are inherently spatially co-registered and synchronous with each other; 2) the first sequence includes signal variation due to one or more causes other than motion or deformation; and 3) the second sequence does not include the signal variation of the first sequence. In this situation, the second sequence can be used to perform motion correction for the first sequence. One example of this approach is Dixon MR imaging, where the water images are the first sequence and the fat images are the second sequence.