Paul --
To use the hoist I absolutely recommend removing the intercooler - it is easy to do and too easy to damage should things get ugly.
Once removed, I believe I removed one of the rear intercooler mount brackets from the head/block and used one of those bolt holes to attach the hoist chain. My hoist as got chains with L-bracket attachments which make this easy; you should be able to come up with something similar, many hoists use this system. The bolts which hold those brackets on look small, but I used a high-grade metric bolt in the hole and it held up without issues. I think it's a 10mm bolt or something (thread diameter).
It's a tight fit to get the intercooler bracket back on once the engine is in, as it's pretty tight up against the firewall, but I don't recall it being much of a hassle. Be sure to use a bolt that is not too long, or you won't be able to remove it. You may have to climb in the engine bay, though... I assume you've already removed the hood?

To attach the front chain, I think I just found another sturdy bolt on one of the accessory brackets and did the same thing. You should not have to do any fabricating, just find a good bolt location and a strong bolt and you'll be in business.
As to the mounts, if you did not receive the mount pads with your engine, I would get some. The diesel pads are different (as you've noticed) and, if used, will allow a perfect, reliable factory fit.
Is it possible Jarco has them and did not ship them? I'd also ask Jerry to see whether the C223 diesel mounts might be the same. Failing that, I would order some from overseas. it would be a pain, but personally I would rather use the factory mounts.
-Adrian