I thought someone might comment on this. There's a reason the ship looks the way it does. There's a lot of stuff here. And by not being long and sleek it has more maneuverability because there's no mass strung out lengthwise. The atmospheric flight mode is not a problem because the bottom of the ship is very aerodynamic and it is more or less a flying wing. You'll notice in the bottom there are also several small and large vectoring thrusters that are capable of lifting the entire weight of the ship vertical. You'll also notice the thruster outlets at the top and bottom of the very back of the engine. This all takes up internal room. Large wings are not really needed. Look at a harrier. They're kind of bulky looking also... or a stealth fighter. nothing sleek about it.
I first thought about making it longer and more streamline but when I started to design in all the things that I wanted it to carry... engine, warp nacelles, thrusters, cooling baffles, Reactors, injectors, cloak, shields, tractor beam, weapons, "and" atmospheric flight... It got bulky. I wanted a fast, stealthy, maneuverable, strike craft that could avoid being blown to bits by a destroyer. After all, fighters in our MOD are worthless... I'm trying to change that.
Like I said before. design is everything. Has to have a reason. If I had my choice of either a really pretty ship with no thought put into it or a box with guns, I'd choose the box with guns. I could use it to blow up the really pretty ship