Of fifty-two men arrested, fifty were charged with "habitual debauchery" and "obscene behaviour" under Article 9c of Law No. 10 of 1961 on the Combat of Prostitution. Another two were charged with "contempt of religion" under Article 98f of the Penal Code. All fifty-two men pleaded innocent.
The trials of the "Cairo 52" lasted five months and the defendants were vilified in the Egyptian media, which printed their real names and addresses, and branded them as agents against the State. The trials were condemned by international human rights organizations, members of US Congress and the United Nations. Lawyers for the defense argued that the cases should be dismissed on the grounds of false arrest, improper arrest procedures, falsified evidence and police intimidation. During the trial, homosexuality was characterized as "un-Egyptian". On November 14, 2001, twenty-one of the men were convicted of the "habitual practice of debauchery," one man of "contempt for religion," and another, accused of being the "ringleader," was convicted of both charges and received the heaviest sentence, five years' hard labour. A fifty-third man, a teenager, was tried in juvenile court and was sentenced to the maximum penalty of three years in prison, to be followed by three years of probation. In May 2002, those convicted were released pending a second trial; both the guilty and not-guilty verdicts were overturned, provoking international outrage. In July 2002, fifty of the men began a second trial. This trial, held at Qasr-al-Nil Misdemeanors Court in Cairo and presided over by Judge Abdel Karim, the same judge who had presided over the first trial, lasted only fifteen minutes, ending when Karim recused himself. The trial was then moved to September. The retrial ended in March, 2003. Twenty-one men were handed three-year jail sentences and twenty-nine were acquitted.
The Cairo 52 were featured in a documentary by After Stonewall Productions, narrated by Janeane Garofalo, entitled . The plot of Maher Sabry's unapologetic film Toul Omry details the lives of gay men in Egypt against the backdrop of the Cairo 52 and the notorious Queen Boat arrests. One of the characters in the film "Kareem" is almost arrested in the police raid on the floating discothèque. The news of the arrests and the follow-up in the media and newspapers is discussed by the characters throughout the film. One of the Cairo 52 men is featured in Parvez Sharma's documentary A Jihad for Love.