When I first heard it I thought about using some kind of similar symmetry arguments (e.g. swapping left-move and right-move). Maybe there are also more elaborate symmetry arguments of some kind.
Isn't it fair to say that there is no single objective definition of what differences between machines are "essential" here? If you have a stronger theory and stronger tools, you can draw more distinctions between TMs; with a weaker theory and weaker tools, you can draw fewer distinctions.
By analogy, suppose you were looking at groups. As you get a more sophisticated group theory you can understand more reasons or ways that two groups are "the same". I guess there is a natural limit of group isomorphism, but perhaps there are still other things where group structure or behavior is "the same" in some interesting or important ways even between non-isomorphic groups?