Haeinsa temple is famous for over 80000 wooden printing blocks of Buddhist scriptures called Tripitaka Koreana and its storage halls, both of which have been registered as the world cultural heritages by UNESCO. The objective of the present paper is to investigate the ventilation flow in the storage halls of Tripitaka Koreana in the case of building rearrangement in Haeinsa temple. Three-dimensional flow simulations were performed with the detailed geometry of all buildings in the temple. The slatted windows on walls of the storage halls and Tripitaka Koreana stored in the shelves inside the storage halls were modeled in detail to predict reliable ventilation performance. A tree canopy model was also adopted to take into account of the effect of the forest surrounding the temple. Wind velocities as inlet boundary condition were imposed from meteorological statistical data. The numerical results were obtained for the effects of the wind direction, wind speed and tree canopy model on the ventilation performance of the storage halls. It was shown from the numerical results that the ventilation flow distribution at the storage halls in the case of building rearrangement would not be significantly altered compared to that before rearrangement.