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A new membrane finite element method for modeling fluid flow in a porous medium is presented in order to quickly and accurately simulate the geo-membrane fabric used in civil engineering. It is based on discontinuous finite element theory, and can be easily coupled with the normal Galerkin finite element method. Based on the saturated seepage equation, the element coefficient matrix of the membrane element method is derived, and a geometric transform relation for the membrane element between a global coordinate system and a local coordinate system is obtained. A method for the determination of the fluid flux conductivity of the membrane element is presented. This method provides a basis for determining discontinuous parameters in discontinuous finite element theory. An anti-seepage problem regarding the foundation of a building is analyzed by coupling the membrane finite element method with the normal Galerkin finite element method. The analysis results demonstrate the utility and superiority of the membrane finite element method in fluid flow analysis of a porous medium.