No, there is no stress, because the rest of ship does not have any resistance (there is no difference in momentum of thrusters and lets say a tip of the ship for example). The force in zero G/ vacuum is not "transmitted" from thrusters to the rest of the object, it is simply applied to the whole object. It is Physics 101.
This is plain wrong. Inertia resists any change of speed, be it in the presence of gravity, or vacuum, or anywhere. The bigger the mass, the greater the inertia. Thrusters only apply force on a surface of the ship. If force is too great, and the mass of the whole object is sufficient, the object will break.
Imagine the following in space:
You have a 100kg anvil tied on a very long hair. Pulling the hair too fast will only make the hair break, and anvil will change speed only slightly. The force of tension exceeds the break poing of hair, but for the tiny fructure of time the hair held together, it managed to change the speed of the anvil.
Example number 2:
Try to hit that oversized anvil with your fist as hard as you can. By the quoted logic the anvil should fly off at the speed of your fist. But would you dare doing that? No, your instincts are more true than your concious thinking. Your instincts tell you your hand will brake and the anvil, once more will only change speed slightly. The more the mass of it, the less its acceleration, because F=m*a...
So an anaconda with oversized thrusters will change speed upon boost, only it will be speeding debris after that. Engineering wise thrusters in more than one place on a ship are required, to share the thrust power on more surface. Turning around an axis for a long ship is very tricky, and thrusters along the ship would need to be electronically calculating how to apply thrust along the surface of the ship. Which is the case on python and anaconda and most big ships if you notice up close.
Engineering wise this might be the best space shape for best turning rate:
http://mimg.ugo.com/201011/6/4/7/132746/cuts/hitchhikers-guide_786_poster.jpg
I 'd totally fly that...