FBI agents were photographed Monday coming out a home in the Chicago suburb of Naperville that USA Today, which first reported the suit, reported was Harris' home.
The boy's mother told the newspaper that both of her sons had spoken to the FBI, and the lawsuit alleges that she also reported the allegations to Fort Worth police, the FBI and others. The complaint contends that the mother contacted authorities after she saw messages from Harris on one of her son's cellphones.
Harris, 21, was the breakout star of the show that followed the cheerleading team from Navarro College in Corsicana, Texas, as it sought a national title.
Harris did not respond for comment from USA Today, and attempts by The Associated Press to find a phone number for Harris have not been successful.
In interviews with USA Today at their Texas home, the boys — who are now 14 years old — described a pattern of harassment both online and at cheer competitions, which began when they were 13 and Harris was 19. They said it continued for over a year.
Besides accusing Harris of sexual misconduct, the lawsuit alleges that cheer organizations failed to protect the boys.
The organizations named in the lawsuit are U.S. All Star Federation, which governs competitive cheerleading; Varsity Spirit, which puts on competitions; and the Cheer Athletics, a chain of gyms.
A Varsity official in Aug. 1 letters to police in Florida and Texas said the organization had learned of "inappropriate sexual conduct" allegations against Harris, USA TODAY reported.
Cheer Athletics owner Angela Rogers told the newspaper that Harris hasn't been affiliated with the gym since March 1. Rogers told the newspaper that she learned of the allegations against him in mid-May and reported them to police.
"Cheer" was an instant success when it was released in January, and Harris drew fans for his upbeat attitude and his encouraging "mat talk."
Earlier this year, he interviewed celebrities on the red carpet at the Academy Awards for "The Ellen DeGeneres Show."
