The company that publishes The Arizona Republic and the Phoenix TV station KPNX are seeking records that show which items investigators took in a search of Loughner's house after the Jan. 8 shooting in Tucson.
The attack outside a grocery store killed six people, including a 9-year-old girl, and Rep. Gabrielle Giffords and 12 others. Loughner pleaded not guilty to federal charges of trying to assassinate Giffords and kill two of her aides.
The indictment specifying those charges superseded an earlier federal complaint that also charged him with murder for the deaths of U.S. District Judge John Roll and Giffords aide Gabe Zimmerman. Another indictment is expected to restore those murder charges.
Loughner also will likely face state charges in the attack.
U.S. District Judge Larry A. Burns of San Diego was appointed to hear the case after all the federal judges in Arizona recused themselves because of their connection to Roll, who was the chief federal judge in Arizona.
David Bodney, an attorney representing The Arizona Republic and KPNX-TV, argued in court papers that there's no basis for the records to continue to be sealed, that the public has a right to the records that have been under seal since Jan. 11, and that prosecutors haven't shown how making the document public would harm their case.
Judy Clarke, one of Loughner's attorneys, said in court records that her client's right to a fair trial might be harmed by the release of search warrant records.
She also said the documents contain potentially inflammatory statements by a law enforcement officer and that releasing the information could have a prejudicial effect on the prospective jury pool.
Prosecutor Beverly K. Anderson said in court papers that the federal government agreed with Loughner's attorneys who maintain the records shouldn't be released until lawyers litigate issues based on the items seized from the suspect's house. But Anderson said if the judge decides to unseal the records, prosecutors want parts of the records to still be kept private.
Loughner's attorneys also asked the court to bar the release of a mug shot taken in Phoenix of Loughner while in the custody of the U.S. Marshals Service. The unreleased photo is a different image from a mug shot that was released by the Pima County Sheriff's Office two days after his arrest.
Prosecutors described the new mug shot as showing Loughner with abrasions on his face and a cinderblock-wall background.
Clarke argued the new photo invades Loughner's privacy rights, doesn't serve any legitimate public interest and that mug shots reveal people at their most humiliating moments.
Prosecutors, who didn't oppose Loughner's mug shot request, said flawed case law binds the Marshals Service to release the photo, but noted that the judge could protect Loughner's fair trial rights from pretrial publicity.
The news organizations that initially requested the mug shot included the Arizona Daily Star in Tucson, KOLD-TV in Tucson and KPHO-TV KTVK-TV, both in Phoenix.