Bud, while placing a phone call for the admiral, asks for the "Sixth Fleet CO"; the correct term is pronounced "ComSixthFleet" (the abbreviation for "Commander, Sixth Fleet". The top officer in charge of such a high-level command is called a "commander", not a "CO".
The Jag team are shown meeting in the wardroom of the cruiser USS Belknap. Supposedly this is the flag ship of sixth fleet. But this isn't possible. The ship had already been decommissioned. It was later used as target practice and sunk.
The series sometimes references ships that were real but no longer active. This is creative license, not an error. The U.S.S. Belknap pictured in this episode actually is the Belknap (CG-26), but the clips are from the time before the ship was decommissioned in 1995.