To enable multiple signatures, each signature is appended as an incremental update (and so does not break any preceding signatures), and each signature only signs the document revision where it was added. Now, there are a number of updates one may want to apply to a signed PDF: adding further signatures, adding document timestamps (also a kind of signature), filling in form elements (in documents where multiple people have to fill out parts of a form and each have to sign their parts), adding annotations (comment boxes, highlighting). For that reason, signature validators have to decide, for all incremental updates that follow a given signature, whether the changes done by those incremental updates are harmless and constitute an intended use case like the ones listed above, or whether they are potentially harmful and try to give the impression that something else was signed than what was actually signed.
The good thing is: Since the incremental updates preserve the revision history of the PDF, one can easily inspect what was originally signed. For example, Acrobat Reader provides a UI command "Show Signed Version" on each signature, which then opens the signed prefix of the PDF, that is, with the subsequent incremental updates removed. The problem is that many users are not aware of this and therefore can be deceived by fraudulent incremental updates if the PDF viewer doesn't indicate that there is an issue.