I don't think there is much doubt that the "official" (whatever that means) way of measuring groups is center to center. This gives the distance between points of impact of the tip of the bullet, not the whole body, and is why bench rest shooters can shoot sub-caliber groups, and, in theory and for scoring purposes, it makes no difference what caliber they use.
I, on the other hand, am a hunter, not a bench rest shooter. So while I still measure my groups center to center, I just lay my calipers on the target eyeballing the points at the center of the hole. Close enough for Gub'ment work!
'sides, what's a few hundredths of an inch among friends...