Fourteen of the 15 boxes recovered from former US president Donald Trump’s Florida estate earlier this year contained documents with classification markings, according to an FBI affidavit released on Friday explaining the justification for the search of the property this month.

The 32-page affidavit, even in its redacted form, contains additional details about an ongoing criminal investigation that has brought fresh legal peril for Mr Trump just as he lays the groundwork for another presidential run.

It underscores the volume of sensitive government documents located at Mar-a-Lago and reveals FBI concerns that the records were being retained illegally.

Though the document offers the most substantial description of the investigation, federal officials also redacted significant portions of it to protect the identity of witnesses and to avoid revealing sensitive investigative tactics.

“The government is conducting a criminal investigation concerning the improper removal and storage of classified information in unauthorised spaces, as well as the unlawful concealment or removal of government records,” an FBI agent wrote on the first page of the affidavit in seeking a judge’s permission for a warrant to search the property

The affidavit does not provide new details about the 11 sets of classified records recovered during the August 8 search at Mar-a-Lago but instead concerns a separate batch of 15 boxes that the National Archives and Records Administration retrieved from the home in January.

An aerial view of Donald Trump’s Mar-a-Lago estate in Palm Beach, Florida
An aerial view of Donald Trump’s Mar-a-Lago estate in Palm Beach, Florida (Steve Helber/AP)

In those boxes, according to the affidavit, officials located 184 documents bearing classification markings, including 25 documents marked as top secret.

And some of those classified records were mixed with other documents, including newspapers, magazines and miscellaneous print-outs, the affidavit says, citing a letter from the Archives.

Agents who inspected the boxes found markings related to information provided by confidential human sources as well as information related to the Foreign Intelligence Surveillance Act.

Taken together, the affidavit reveals additional details about an ongoing criminal investigation that has brought fresh legal peril for Mr Trump just as he lays the groundwork for another presidential run.

It also shows in stark detail the volume of sensitive government documents that were stored at Mar-a-Lago instead of being turned over to the National Archives.

Affidavits typically contain vital information about an investigation, with agents spelling out the justification for why they want to search a particular property and why they believe they are likely to find evidence of a potential crime there.

But affidavits routinely remain sealed during pending investigations, making the judge’s decision to reveal portions of it all the more striking.

Trump FBI
Pages from the affidavit (Jon Elswick/AP)

In an acknowledgment of the extraordinary public interest in the investigation, US Magistrate Judge Bruce Reinhart on Thursday ordered the department by Friday to make public a redacted version of the affidavit.

The directive came hours after federal law enforcement officials submitted under seal the portions of the affidavit that they want to keep secret as their investigation moves forward.

The redactions proposed by the Justice Department are extensive given the sensitivity of the investigation, lessening the likelihood that the document will offer a comprehensive look at the basis for the unprecedented search or significant insights about the direction of the probe.

Yet even a redacted affidavit can contain at least some fresh revelations about the investigation, and is likely to help explain why federal agents who had tried for months to recover sensitive government records from Mar-a-Lago ultimately felt compelled to obtain a search warrant.

Documents previously made public show the FBI retrieved from the property 11 sets of classified documents, including information marked at the top secret level.

They also show that federal agents are investigating potential violations of three federal laws, including one that governs gathering, transmitting or losing defence information under the Espionage Act.

The affidavit by the FBI in support of obtaining a search warrant for former President Donald Trump’s Mar-a-Lago estate
The affidavit by the FBI in support of obtaining a search warrant for former president Donald Trump’s Mar-a-Lago estate (Jon Elswick/AP)

The other statutes address the concealment, mutilation or removal of records and the destruction, alteration or falsification of records in federal investigations.

It is possible that the affidavit, particularly in its unredacted form, could shed light on key unanswered questions, including why sensitive presidential documents – classified documents, among them – were transported to Mar-a-Lago after Mr Trump left the White House and why Mr Trump and his representatives did not supply the entire tranche of material to the National Archives and Records Administration despite repeated entreaties.

It could also offer additional details on the back-and-forth between Mr Trump and the FBI, including a subpoena for documents that was issued last spring, as well as a June visit by FBI and Justice Department officials to assess how the materials were being stored.

The Justice Department had earlier contested arguments by media organisations to make the affidavit public, saying any disclosure could contain private information about witnesses and about investigative tactics.

But Judge Reinhart, acknowledging the extraordinary public interest in the investigation, said last week that he was disinclined to keep the entire document sealed and told federal officials to submit to him in private the redactions it wanted to make.

In his order on Thursday, Judge Reinhart said the department had made compelling arguments to leave sealed broad swathes of the document that, if disclosed, would reveal grand jury information; the identities of witnesses and “uncharged parties”; and details about the investigation’s “strategy, direction, scope, sources and methods”.

But he also said he was satisfied “that the government has met its burden of showing that its proposed redactions are narrowly tailored to serve the government’s legitimate interest in the integrity of the ongoing investigation and are the least onerous alternative to sealing the entire affidavit”.