Maybe better to say that the universe does not appear to pick out a single coarse-graining or fine-graining procedure for practically any system.
For instance, following your Boltzmannian example, I think one would notice swapping 1 µm³ of the r/w head and 1 µm³ of the recording surface of a new, freshly powered on HDD more than one would notice substituting the entire HDD for a new one of the same model and turning that on. And here I am already using units of length (cf. "equal volume"), and we know neither units nor lengths are generally picked out by the universe.
For instance, following your Boltzmannian example, I think one would notice swapping 1 µm³ of the r/w head and 1 µm³ of the recording surface of a new, freshly powered on HDD more than one would notice substituting the entire HDD for a new one of the same model and turning that on. And here I am already using units of length (cf. "equal volume"), and we know neither units nor lengths are generally picked out by the universe.