Modeling of the mass transfer zone behavior under variable conditions in a flow-through fixed-bed sorption column enabled the prediction of breakthrough curves for Cu2+ and Ca-preloaded Sargassum fluitans biomass. The mass transfer resistance, particle diffusion, and the axial dispersion were incorporated in the model. The dynamics of the mass transfer zone was described under variable sorption column operating conditions including different column lengths and fluid flow rates. Accurate estimation of the behavior of the mass transfer zone as it progressed through the column, reflected eventually in the breakthrough curve, assisted in its relevant interpretations. Furthermore, the proposed mathematical model of the biosorption process was capable of demonstrating the expanding and broadening of the mass transfer zone linked to the equilibrium sorption isotherm. The fundamental understanding of the mass transfer zone dynamics is particularly important for process scale-up where maintaining the process efficiency is critical.