Starship Operator's Manual - Vol I, p.4:
. . . What makes it go are the thrusters, these big plates mounted on the stern of the ship. You could ask some physicist if you wanted the straight skinny; all I know is that there are particles that push against these things and actually move the ship. There's no reason the thruster plates have to be hooked onto the stern; they could go up front or inside, for that matter. Whatever makes this work builds up a lot of light and heat though, so it's a lot easier to sink them from outside.
I heard of a green Naval architect who figured that mounting the thrusters up front would be better. I don't know how many megacredits the brass spent on this idea, until someone ran a halo simulation of what one of these beasts would look like.
Here's the vessel, sneaking up on some blockade runner, except that the thrusters are lit up like a supernova. Passive EMS would've picked it up in a second. It was a dumb idea - the only time I'd want the extra oomph was when I was running, anyhow.