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Crossflow filtration with pore blocking is an unsteady system affected by operating conditions. We model pore blocking and solve the governing partial differential equations using the method of lines. The loss in permeability is neither spatially nor temporally uniform. Operating at constant flux results in a greater permeate of clean water but at a higher operating cost than operating at constant pressure. • Mathematical model of unsteady crossflow filtration with pore blocking. • Numerical method of lines solver for differential–algebraic equations. • Operating at constant pressure is more efficient than at constant flux. [ABSTRACT FROM AUTHOR]