The invention comprises a multiplexed proton tomography imaging apparatus and method of use thereof. In one embodiment, a method for imaging a tumor of a patient comprises the steps of: (1) simultaneously detecting spatially resolved positively charged particle positions passing through each of a set of cross-section planes, where the cross-section planes are both prior to and posterior to the patient along a path of the positively charged particles (2) determining a prior vector for each of the individual positively charged particles entering a patient using the detected positions (3) determining a posterior vector for each of the individual positively charged particles exiting the patient using the detected positions (4) generating a probable path of each positively charged particle through the patient and (5) generating an image of the patient using the n probable proton paths and optionally a detected residual energy of each proton.
