If you are asked to perform a second notarization on a revised document, you are in effect performing a second notarization. While some clients might think all you have to do is send a new acknowledgment certificate with your stamp and signature, they are wrong.
Instead, all signers must reconvene. They don't necessarily have to sign the document again, but they must appear before you and go through all the notarization steps again, including making new journal entries. This way all signers acknowledge they are aware of the changes to the document.