This article investigates electrolyte filtration in the bottom of the aluminum electrolyzer cathode device using the mathematical modeling. Penetration of molten electrolyte in the heat insulation part of the lining is one of the main reasons of electrolyzer premature shutdown, because it leads to bottom destruction and excessive heat loss. This problem is considered a two-phase filtration of incompressible immiscible liquids in an inhomogeneous non-deformable porous body. The verification of the model on the problem of water filtration pin a porous medium has confirmed its adequacy. With the help of the developed mathematical model the dynamics of the impregnation of the lining of the cathode and electrolyte device defined thermal balance baths. Research has identified the speed of penetration of the melt in the bottom of the bath during service of the electrolyzer.