A system and method for MR based tracking of a tissue point includes a RF coil assembly configured to emit RF pulse sequences and a system control coupled to the RF coil assembly. The system control is programmed to cause the RF coil assembly to emit a first RF pulse comprising a first pair of two-dimensional (2D) spatially selective beams, each of the beams being directed to a respective tagging location in the subject of interest and wherein the tagging locations are equidistant from a pre-determined point-of-interest. The system control is further programmed to acquire a first series of MR images from a subject of interest, identify the first pair of 2D spatially selective beams in each MR image in the first series of MR images, and track a position of the point-of-interest based on the identified 2D spatially selective beams in the first series of MR images.