Chief, those inflight deployement problems were do to the fact that the bomb was ejected directly into the turbulence caused by the engines. The bomb would ride back there in the jetwash, and it was impossible to predict when it would 'decide' to fall out of it. They were afraid the bomb could potentially fly back into the aircraft, or do something else equally damaging, not to mention that you completely lost any accuracy you might have had. Not too much of a problem with a nuke, but with normal weapons, thats quite a factor.
I hate to basically advertise for another sim here, but if you would really like to design a new Vigilante with an updated layout, and actually see how it would fly, try X-Plane, www.x-plane.com. It actually mathematically derives the flight model, meaning the aircraft will fly in the sim just like it would in the real world.