I think a fundamental problem with physics, and science in general, is that we observe a behavior, formulate a law to explain that behavior, then come to expect everything to obey that law. Maybe if we formed descriptions of physics, we would be more apt to question them, and not be so surprised when they are wrong.
Just as a lousy example: the fastest thing we observe is light. We formulate a law that says nothing can exceed that speed. Then we observe violators of that law, but since its a law, the observation must be wrong, not the law.
#2 in your link states that Nothing can travel faster than the speed of light, so there is no way heat radiation could have traveled between the two horizons to even out the hot and cold spots created in the big bang and leave the thermal equilibrium we see now. BUT the heat is uniform. Nothing can exceed the speed of light, but the heat is uniform... Either the speed of light law is wrong or the big bang theory is wrong, but were really not allowed to question either.
I read a report a while back about a group who fired a matched pair of photons in opposite directions, then influenced one with a magnetic field. The other responded in exactly the same way, but couldnt have, because communication faster than the speed of light is impossible, because we have this law that says nothing is faster than the speed of light...
Addited: All I'm trying to say is that our laws of physics are really descriptions of observed behavior, or maybe predictors of likely behavior. The universe doesn't necessarily obey our laws.