An accurate estimation of water level variation when thewaves propagate to the coastal regionis very important for the port and harbor development plan. This study describes the application of a hybrid element model to harbor oscillation problem due to the construction of shore structure and implementation of shore boundary. The site selected is Pusan Harbor area with the third development and the Artificial Island plan. The observed water level changes at the site are compared with the result of the numerical experiment. The model gives a very important prediction of water level changes for navigation and harbor design.