In a similar case a few years ago, Col Michael Murphy (USAF JAG) received a punishment of “no punishment” following a court martial conviction because, as a White House military liaison, he received commendations that the government refused to release because they contained classified information. He was later retired at the rank of 2LT because that was the last rank at which he served honorably. Flynn may get the same treatment...
I'd love to see the details of this little account. It implies that he was committing crimes at every rank from 1LT to COL. I am skeptical. JAG officers generally receive a direct commission as a 1LT or Capt, unless they in served in another branch or specialty before attending law school.