He began posting material indicating his support for Isis from September 2014 - posts which Hendratno "liked".
The AFP also notes that Agustin comments on the page of Heri Kustyanto, who it's believed left his Indonesian family to fight with Isis in Syria or Iraq.
At the time of the report, Agustin was active on Facebook as Hobi Panahan, was befriending radicals and listed his current city as Raqqa, Syria.
The AFP report says Hendratno lives in Bogor, near Jakarta, and was a pilot for the Indonesian Navy before Garuda and Premiair.
He had posted photos of trips around the world, including to Australia, but by December last year was posting pro-Isis material.
His friends list included many military and commercial pilots.
The report concluded that radicalised pilots were an obvious threat, "as witnessed by past global events" and noted that a recent edition of the al-Qaeda magazine had encouraged aviation attacks. Both men were trained pilots with contacts in the industry, it said.
The AFP distributed the report to partners in Turkey, Jordan, London, the United States and Europol, the Intercept reported.
- AAP