A certificate records what was destroyed. It does not claim that every copy everywhere is gone, and it will not say so.
Storage systems sometimes accept a deletion and never confirm it. LEAT records that as unknown rather than assuming it worked, and somebody follows it up.
A batch with an unresolved item is not certified as complete. It stays open.
Deleting a document does not reach into backups taken before the deletion. Those age out under the backup policy, which the certificate names. A certificate that claimed otherwise would be claiming something LEAT cannot show.