Ok, this was just annoying the hell out of me since last night. Had way too much to do today to even think about screwing with. Screwed with it anyway.
The pin is smaller in diameter than the holes in the rotor it needs to set within. So even though only about half the diameter of the hole was available it was still really really close.
Rotors are, of course, hard. HARD. Drilling them with a standard ordinarly $2.89 drill bit would likely be a good exercise in overheating and ruining a drill bit while only pissing off the rotor.
So, after making sure once again that all possible play in the caliper bolts that might help was being used I set down on the floor with a mother of an expensive rotary hone and started working inside the holes. An hour later, one pretty much ruined hone, and 6 holes now captured by the pin. Opened up each hole no more than probably .015" or so. Not much, but enough.
I don't know if there's a bit of casting variation in the fork legs that might account for having the caliper in or out of position enough to make a difference. With legs that were anodized or polished it would have been far simpler to relieve ever so slightly the two holes that bolt the caliper in place rather than the rotor itself. Didn't want to break the edge on the chrome of these engraved legs though.
In any case, can not say absolutely that someone might have the same problem. Only that this particular combination of parts did. It works now though. So all's well that pins well.