Does the FAA have jurisdiction over military aircraft or regulate them in any way?

Answer 1

The FAA regulates all aircraft when it comes to air traffic control within controlled airspace. Military aircraft always have the prerogative to declare "Due Regard" (operations will be conducted with due regard for the safety other aircraft) or "MARSA" (military assumes responsibility for separation of aircraft) when the mission requires it. The FAA does not have control over the training or certification of military pilots of aircraft. An interesting deviation to this are the civilian aircraft that are also in the US Air Force inventory. These include the VIP aircraft used to carry generals and politicians and includes Air Force One. These aircraft were certified by the FAR's (Federal Aviation Regulations). The E-4 Airborne Command Post was developed from a Boeing B747-200. It was already certified by the FAR's. But the Air Force added liquid oxygen system (civilian aircraft only use gaseous oxygen) and an In-flight Refueling Receptical. These were certified by military regulations. The USAF required a higher Take-off Gross Weight so Boeing added the General Electric CF-6 engines and larger brakes and this was certified by Boeing using FAR's and flight test program.