Embodiments of the invention include systems and methods for providing block-level verification of replicated file systems. Embodiments operate in context of data storage environments, which may typically have multiple file systems, snapshots of file systems, and replicas of file systems. In one illustrative scenario, a replica is created of a file system having multiple associated snapshots, and a user desires to verify the accuracy of the replica. A signature is created for each of the source active file system and the target replica file system, so that each signature includes records of both block-level signatures and block-level allocations. The signatures are compared to discover any differences. The differences may then be reconciled, where possible, to determine whether the differences indicate a corrupt or otherwise invalid replica.