First I will provide a link to the search warrant related to the raid on Mar-a-Lago and then we will discuss.
NBC - Read the FBI's search warrant for documents at Mar-a-Lago resort.
The first item listed in the list of documents removed from Trump's home was listed as documents related to the clemency grant for Roger Stone. Now that is not secret, top secret or even classified. The clemency is public record and has been published. It does not relate to any crime Trump may or may not have committed as it is exclusively in the presidents pervue to give clemency and pardons on a federal level. No reason is needed.
Read the warrant it covers any documents created during the Trump presidency. The warrant actually is overly broad and unconstitutional under federal rules of search and seizure. Using this warrant would allow the seizure of love letters written to his wife or happy birthday cards.
Ignore the bullshit and guessing by the media as to what was in the boxes. We know how broadly they used the warrant. I have read that some believe it was the nuclear codes. This is ridiculous as those are changed when presidents are changed and even more often than that. I don't see how that would be related to Roger Stone's clemency. It isn't in the document. Why the lies and games in the media and by the FBI? At a minimum it is a fishing expedition, in search of a crime. When the affidavits do get published, think they will mention Roger Stone's clemency?