2 door hatchback vs 2 door with trunk will change things too. Hatchbacks have a huge opening in the middle of teh body while the rear shelf in cars with trunks tend to add some stiffness.
I'd also guess that a lot would depend on whether both body styles were intended from the initial design. If the car was originally intended to be just a 2 door, but became really popular and someone decided to add a 4 door version, I'd bet that the 2 door is way stiffer. But if the car was originally a 4 door and then they converted the 4 door platform to a 2 door, the compromises in the 2 door design may limit it's stiffness.
Or I could be grasping at straws. It wouldn't be the first time.
Bob