Baseball is supposed to be unscripted. When an umpire thinks it's their job to make judgments about what serves drama, we've descended from great clashes of human talent into storytelling, reversing the results of actual performance and negating the actual human element that the game was designed around.
If waxing rhapsodic for a little bit about human ineffibility is enough to get you to throw away the integrity of the game, because you think doing so is some grand romantic gesture celebrating human nature, at that point you could be talked into anything, because you lost sight of everything. Which I suppose proves the thesis of the article to be true after all: facts really won't save us, at least not if we leave it to the humans.