Yeah, and in theory/ on paper that messes up your BTO because the case can float somewhere in that range - constrained by the extractor at least. 100% agree there. There are variances in the shoulder length that could screw stuff up.
But once you seat to a particular BTO on a fired case, use that measurement, AND it works... no change to the relative measurements from that point forward resulting from using the standard modified case.
This is why I "rough in" jump at first, usually 0.020" off/ mag length/ arbitrary starting point for the first loads. Then fire all the cases. THEN do fine seating depth tuning - because at that point the relativity of measurements has leveled out.
Basically is doesn't matter if 2.640" BTO is actually 0.005" off, 0.010" off, or 0.030" off - all that matters is all your future rounds load to whatever length worked, meaning whatever BTO your comparator shows you.