The children were taken into Arizona Child Protective Services, which will coordinate with Georgia authorities regarding their fate. Gurley said Casey Fagen is also still in Arizona.
Police believe the family had been in the Phoenix area as of May 10. It's unclear how long Fagen remained with the family, or when he left to return to Georgia.
No charges have yet been filed against Casey Fagen, though Gurley said the investigation continues.
The girl first reported abuse to teachers at Baggett Elementary School, who contacted the Department of Family and Children Services.
DFCS contacted the sheriff's office on April 17. Warrants for Fagen's arrest were issued on May 19 after the investigation was completed, Gurley said.
The girl was last seen on April 28 at Baggett Elementary and was withdrawn from school by her maternal grandmother on April 30, according to authorities.
Police continue to investigate the case to determine whether additional charges are needed.