As the carrier of biomineral aragonite, fish otoliths memorize various messages of environment through the fish’s life. The authors tentatively apply X-ray computed tomography (CT) to the studies of the internal structure of wild carp otoliths, with the CT value determined by variations in the sample density and element composition. The primary result indicates that difference exists in CT values of otoliths for the carps from the above-mentioned two waters. With studies in-depth, it is possible that X-ray computed tomography could be served as a useful tool in the study of fish otoliths, and the CT values can be taken as typomorphic parameters to distinguish the waters with different degree of pollution.