The cleanup() and compact() functions first checks the collection options using listCollections. If this listCollections command is sent to a secondary node, that node may not have replicated the collection yet and will return a NamespaceNotFound error.

This failure occurs when shards are database metadata authoritative because listCollections on a secondary node does not require a refresh of the DSS to satisfy the dbVersion and is executed before the collection creation is replicated. Without authoritative database metadata on shards, the secondary node will acknowledge the collection while still waiting for the refresh.