Disclosed herein are methods, systems, and processes to improve the duplication of data between disparate deduplication systems. Source fingerprints are generated for data blocks using a source fingerprint algorithm at a source deduplication system. The source fingerprints and previously-generated source fingerprints are used to determine whether the data blocks are new or modified. If the data blocks are new or modified, target fingerprints are generated for the data blocks using a target fingerprint algorithm associated with a target deduplication system. The target fingerprints are sent to the target deduplication system.