The Yeongsheon Sinwoldong three-storied stone pagoda (Treasure No. 465) composed mainly of drusy alkali-granite. The major rock-forming minerals are biotite, quartz, amphiboles, orthoclase and plagioclase. Yellowish brown and black discoloration are formed at the eight sculpture Buddha of the stylobate. A broken rock fragments in the roof material were repaired using epoxy resin and cement mortar in the past. As a result of the infrared thermography analysis from the pagoda, cracks and exfoliation were not serious. Also, P-XRF analysis showed that concentration of Fe (mean 5,599ppm) and S (mean 3,270ppm) were so high in yellowish discoloration parts. Black discoloration area was detected highly Mn (mean 2,155ppm) concentration around the eight sculpture Buddha of the stylobate. The main reason for these are inorganic contaminants from disengaged rock ingredient and organic contaminants from withered plant body. Degree of physical weathering is relatively high in the southern and northern side. The eastern and western side had similar with weathering condition. The northern and eastern side were serious discoloration and biological weathering relatively. Therefore, we suggest that the pagoda need to do cleaning of biological contaminant and conservation treatment to weakened materials of rock and long term monitoring.