In this work we develop an ab initio informed rate theory model to track the spatial and temporal evolution of implanted ions (Cr+) in Fe and Fe-14%Cr during high dose irradiation. We focus on the influence of the specimen surface, the depth dependence of ion-induced damage, the damage rate, and the consequences of ion implantation, all of which influence the depth dependence of alloy composition evolving with continued irradiation. We investigate chemical segregation effects in the material by considering the diffusion of the irradiation-induced defects. Moreover, we explore how temperature, grain size, grain boundary sink strength, and defect production bias modify the resulting distribution of alloy composition. Our results show that the implanted ion profile can be quite different than the predicted SRIM implantation profile due to radiation enhanced transport and segregation.