<quote>That said, the hole in the shank portion (bottom pic) looks just like a normal Pete to me (or, at least, like the few Pete's I've owned). All four of mine had either a sump on the system or the dimpled beginning of a sump on the nons directly in the center of shank, with the draft hole directly above.</quote>
This. More or less all factory pipes--Dunhill, Peterson, Savinelli, Chacom, etc--will have high draft hole placement in the mortise on deeply bent pipes. In order to figure out why this is, all you need to do is take a ruler edge (or drill bit) and set it next to a pipe and see where the angle needs to be in order to match up the bottom of the chamber with the end of the shank. If you want a couple of really good examples of this that aren't from Peterson, look at the Dunhill 26 shape. It's also true of the Savinelli 614 shape, but the shank and mortise are smaller and therefore it's less obvious. These are good examples because of how extreme the bend is and how radical the placement of the draft hole in the mortise needs to be.
There are ways this can be ameliorated (ramping the draft hole at the back of the mortise), but it takes considerable technical skill and time to do so and is pretty much only seen on artisan pipes (of course, there are some minor exceptions to the above, but this is broadly true). Ramping only takes you so far, though, so many artisans (Nanna Ivarsson and Jess Chonowitsch most notably) simply won't make anything deeply bent, while others will contrive faux-mortises in shank extensions to get around the problem. But, regardless, almost all makers*--factory or otherwise--are faced with putting a straight drill bit through something curved. The degree of the curve (and other compensatory techniques) determines the placement of the draft hole.
As for the drilling in the chamber, I can't really see well enough to tell what's going on there, so I'm not going to speak to that.
One other thing worth noting:
I'm not sure where the pipe was purchased (and it sort of doesn't matter), but Peterson hasn't made a Kinsale series pipe in a couple of years now, well predating Laudisi's acquisition of Peterson. I'm not sure if that's relevant given the above.
*Ser Jacopo has a curved drilling rig that eliminates this problem, but has a tendency to introduce others (really gigantic draft holes, which aren't a problem for some, but are for others, depending on tobacco preferences). Smio Satou has this bizarre contraption he created to solve this problem; I still don't fully understand how it works even though I've seen the tool and the result. Net-net, creative solutions involving curved drilling are probably a good thing, but it's really fiddly, so either requires a lot of time and care, or can have some odd results because the drill bit more easily strays during drilling.