The present study is to estimate the effect of wave height affecting at the front face of breakwater systems, when a submarine trench is dredged in the distant offshore from outer breakwater. The wave diffraction field, which is important hydraulic factor in the ocean, is considered to be two dimensional(2D) plane and the configuration of the submarine trench on the sea bed designated by single horizontal long-rectangular system. The numerical simulation is performed by using Green function based on the boundary integral equation and meshed at moving boundary conditions. The results of present numerical simulations are illustrated by applying the normal incidence. It is shown that the ratios of wave height reduction at the front face of breakwater systems are approximately 20% by the effect of placing long trench on the sea bed. This study can effectively be utilized for safety assessment to various breakwater systems in the ocean field.