Numerical simulation is essential to indicate the flow of the atmosphere in the region with a complicated topography which consists of many mountains in the inland while it is neighboring the seashore. Such complicated topography produces land and sea breeze as the mesoscale phenomenon of meteorology which results from the effect of the sea and inland. In the mesoscale simulation examines, the change of the temperature in relation to the one of the sea surface for the boundary condition and, in the inland, the interaction between the atmosphere and land surface reflecting the characteristic of the land surface. This research developed and simulated PNULSM to reflect both the SST and vegetation effect as a bottom boundary for detailed meteorological numerical simulation in coastal urban area. The result from four experiments performed according to this protocol revealed the change of temperature field and wind field depending on each effect. Therefore, the lower level of establishment of bottom boundary suitable for the characteristic of the region is necessary to figure out the atmospheric flow more precisely, and if the characteristic of the surface is improved to more realistic conditions, it will facilitate the simulation of regional environment.