Kayla Rosenfeld, the spokeswoman for Hawaii's Department of Human Services, said late yesterday the youth is "no longer in Hawaii."
Her brief emailed statement did not specify how or when Yahya Abdi left, whom he travelled with or where he went. A call to her office was not immediately answered early today.
The boy's father, Abdilahi Yusuf, arrived in Hawaii this week from the family's home in Santa Clara, California, to bring him back.
Rosenfeld had said previously that the teen was in a Honolulu hospital after being transferred to state custody from the Maui airport, where he was questioned by FBI and airport officials following the April 20 flight.
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He has not spoken publicly about the ordeal that raised questions about airport security and revealed the personal family drama of a Somali immigrant struggling to adjust to life in the United States.
Abdi, who lives in Santa Clara with his father, stepmother and siblings, had been unhappy in California and desperately missed his mother, according to those who know his family.
His mother lives in a refugee camp in eastern Ethiopia. Ubah Mohammed Abdule told The Associated Press that the boy longed to see her, but couldn't because his father told him she was dead and didn't allow contact.
A family spokesman didn't immediately return a call for comment early today.
Yesterday, the San Jose Mercury News reported that Mukhtar Guled, a cousin of the boy's stepmother, said it's not clear whether the father will be allowed to bring his son home.
"He could not see him. They won't let him see him or visit him or talk to him," Guled said.
A spokeswoman for the Council on American-Islamic Relations in San Francisco, which has been speaking with media for the boy's family, did not immediately respond to a message seeking comment last night.