In this paper, the effect of time varying fracture skin porosity on the contaminant transport mechanism in the fractured porous media is analyzed using numerical modeling. An implicit finite difference numerical technique has been used to solve the coupled non-linear governing equations. The effect of increasing porosity with time on the contaminant transport mechanism has been analyzed for various initial fracture skin porosities. Results suggest that time varying fracture skin porosity can affect the contaminant transport mechanism in a fracture matrix coupled system The concentration rapidly reduces within the fracture for various half fracture apertures and fracture-skin diffusion coefficients due to the effect of time varying fracture-skin porosity.