In assessing the seismic safety of nuclear power plants, it is essential to analyze the structures using the observed ground motion. In particular, spatial variation in which the characteristics of the ground motion record differ may occur if the location is different within the site and even if the same earthquake is experienced. This study analyzed the spatial variation characteristics of the ground motion observed at the structure and site using the earthquake records measured at the Hamaoka nuclear power plant. Even if they were located on the same floor within the same unit, there was a difference in response depending on the location. In addition, amplification was observed in Unit 5 compared to other units, which was due to the rock layer having a slower shear wave velocity than the surrounding bedrock. Significant differences were also found in the records of the structure’s foundation and the free-field surface. Based on these results, the necessity of considering spatial variation in the observed records was suggested.