Jolie filed for divorce from Pitt after their two-year wedding anniversary. The couple has been together for 12 years and has six children.
The L.A. County Department of Children and Family Services is investigating Pitt, 52, after the alleged incident was anonymously reported to them. The case also has been referred to the FBI under special aircraft jurisdiction due to the incident being mid-flight.
"There was a parent-child argument which was not handled in the right way and escalated more than it should have," the source told the magazine.
The source said Pitt did not hurt his son. “He is emphatic that it did not reach the level of physical abuse, that no one was physically harmed. He did not hit his child in the face in any way. ... He put his hands on him, yes, because the confrontation was spiraling out of control."
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