U.S. District Judge Loretta Preska said in a July ruling the public's right to have access to the information carried heavier weight than the "annoyance or embarrassment" to Maxwell.
Maxwell has denied the allegations against her, including under sworn testimony.
She also is charged with two counts of perjury.
She pleaded not guilty and was ordered to jail pending a trial.
Giuffre said she was a teenager when Maxwell pulled her into Epstein's circle, where she was groomed and trafficked for sex with Epstein and other wealthy, powerful men.
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But the 2nd US Circuit Court of Appeals decided on Monday that her arguments for keeping them private were meritless.
Other materials that have always been kept secret will also be made public.
"We represent Plaintiff Virginia Giuffre in this matter and write to confirm that, pursuant to the Court's orders dated July 28, 29, and 30, and October 20, 2020, Plaintiff may file the remaining documents [at issue and subject to the court's orders] later today", the one-page filing notes. Other details, such as the families of nonparties and "descriptions of nonparty conduct that would allow readers to discern the identity of a given nonparty", will also be excised.
However, in that ruling Preska did say that some information will remain sealed.
"C$3 ounsel for Ms. Maxwell requests that the Court refuse to "confirm" [Giuffre's] proposed course of action and instead, consistent with today's [earlier court order], direct the parties confer as they have been on proposed redactions to Ms. Maxwell's deposition prior to its release", the motion concludes. And the court said that any other appeals in the complicated and long-running case should be made to the same appeals court, which is based in NY.
Epstein never faced a federal trial for his alleged crimes.
Epstein was arrested in 2019 but died by apparent suicide amid suspicious circumstances inside New York City's Metropolitan Correctional Center in August of that year.