Chris,
Some questions and observations from the peanut gallery:
What, if any, accurate indexing means is employed to keep the layers of this cake in proper relative position?
The top view of the damaged piston seems to show two sets of flycuts on the same side of the piston. Is this an optical illusion or is there an explanation for them? Piston prepped for different engines?
There also appears to be a slight raised rib around the top of the cylinder liner--a built-in head gasket O-ring?
I would second the suggestions for using Hylomar--its much easier to live with.
Through-bolts:
How much length of engagement do they have with the oiling bosses? Do they come close to flush with the bottom surface of the boss? What is the normal torque spec? (Aside - “yield” is not necessarily failure or unusability. Who says these bolts were loaded to “yield”? Sounds like a bolt sales effort--although ARP replacements would be nice. Any number of critical bolted joints are made up past yield--if it breaks during installation, it gets replaced, if not, it gets used as is.) While a relatively “soft” nut should be able to break its corresponding bolt, the difference between aluminum and steel might push the notion, and this also depends on the thread characteristics. If the bolt engagement is long enough, as suggested by earlier replies, counterboring the boss bottom surface enough to engage a washer and (steel) nut might make you feel more comfortable.
Not sure about your concern that the oil was leaking between the ladder and the girdle. Seems to me the oil is fed from the ladder through the ports between the bolt holes into the girdle and thence to the bearings. All those port surfaces look clean and in good contact. The stains on the ribbing elsewhere is probably just incidental oil from the crankcase and of no consequence. The bolt preload is fed directly from the bosses into the girdle with the oil ports in close proximity and well loaded. The rest of it is there just to hold the pieces together.
Standard vs. “uprated” oiling manifold:
Given that the bolt loading is directly from the bolt to the boss and into the girdle, what exactly is “uprated”?
Also, from the photos, and to my eyes and set of dividers, the lateral bolt spacing of the uprated part looks to be narrower than the standard. Are these parts for the same engine? Granted there may be some sort of photographic foreshortening involved, but it doesn’t seem to be enough to account for the apparent difference.
Have you come across a cross-section drawing of the engine showing everything stacked together?