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Just so you know, the Navy doesn't expect you to jump right into the second year of residency after two years in the fleet. Most returning GMOs do a 2-3 month 're-turn' period where they repeat the core intern rotations. For example in Peds you do a three month re-turn of wards, NICU, and general outpatient clinic and are then promoted to a second year role. So you graduate a few months after your peers. Whatever knowledge gaps there are seem to be adequately made up, at least in my field. In the third year classes I have never been able to tell the returning GMOs vs the straight through Interns without asking.
This is also a lot harsher than it needs to be. The opportunity to be a real military officer, to provide leadership to a small group of enlisted personel, to go through the first two phases of flight school, and to fly in some of the worlds most advanced aircraft (even in the back seat) are all very cool opportunites that are pretty much unique to being a flight surgeon, I've met plenty of experienced flight docs that still speak glowingly of the opportunities they've had. I'm not saying its necessarily worth the downsides, but comparing all of that to the unique opportunity of tossing someone's salad in prison is needlessly negative.
My views on this topic are pretty clearly laid out in the flight surgery thread in the premed board.
IM would only make people be resi-terns if they hadn't done an IM internship. I went right onto the wards as an R2, 4 days after checking in off deployment.