First, weakening is not related to uncertainty, at least not in the normal sense that I think you refer to. It is not related to the physical solution itself but to our own rules of what we consider a solution. If instead of vector fields we were working with animals, the strong solution would be "we need this animal to be a duck" and the weakened one is "we need this animal to quack when we poke it with a stick". So it is not similar to the quantum uncertainty principle nor anything like it.
Second, mathematicians are interested only in these specific equations. Breaking the equations means that they do not model correctly the real world, and finding those new equations is the job of physicists. Maybe there are other conditions on the solutions, or maybe the relaxation they did allows for non-physical solutions. In fact, they do not prove that those solutions satisfy the energy inequality, so it might be possible that all but one of those non-unique solutions are only possible if you allow fluids to magically gain energy out of nowhere (which obviously conflicts with thermodynamic laws).