I use Command School as a requirement for taking command of a starship. I look at it as the training that culminates in the "Commander's test" Deanna Troi took in "Thine own Self".
I wrote up how I handle it in my post-academy advancement article in BTFF #7, if you'd like to check it out. It's a one-time, single-advancement training course...
Former Decipher RPG Net Rep
"Doug, at the keyboard, his fingers bleeding" (with thanks to Moriarti)
In D&D3E, Abyssal is not the language of evil vacuum cleaners.