A method is used in managing migration of virtual file servers. The method migrates a virtual file server from a source storage processor to a destination storage processor in a storage system. The storage system includes the source and the destination storage processors. The virtual file server comprises a root file system, a configuration file system, and a set of user file systems. The method enables concurrent access to the root file system from both source and destination storage processors during the migration until the set of user file systems is migrated from the source storage processor to the destination storage processor.