One thing the article doesn't mention is that baseball agreed to use MLB baseballs, which are harder and have a lower seams, in AAA. The season they started using the MLB baseballs (2019) AAA average OPS jumped by like 80 points. Before 2019 you could more reliably project major league performance from AAA stats for hitters, because it was more plausible for AAA pitchers to be able to produce pitches with an MLB level shape. The downside was that for pitchers you had a really high failure rate going from the minors to the majors. For the Orioles in particular, the fact that Norfolk is such a hard place to hit meant that a hitter doing even passably ok meant that he was probably MLB ready.
I think that putting them on the same equipment in the high minors makes a lot of sense, and the problems with projecting hitters is almost certainly less than the issues with pitchers having to learn how to pitch with a different baseball. But it's definitely something to keep in mind when looking at minor league hitting stats, especially those from AAA.