The purpose of this paper is the development of a compensation algorithm by which the interoperability of fingerprint recognition can be improved among various different fingerprint sensor. In order to compensate for the different characteristics of fingerprint sensor, an initial evaluation of the sensors using both the ink-stamped method and the flat artificial finger pattern method was undertaken. This paper proposes Common resolution method and Relative resolution method for compensating different resolution of fingerprint images captured by disparate sensors. Both methods can be applied to image-level and minutia-level. In order to compensate the direction of minutiae in minutia-level, Unit vector method is proposed. The EER of the proposed method was improved by average 64.8% better than before compensation. This paper will make a significant contribution to interoperability in the system integration using different sensors.