You say you have a 10.25:1 compression ratio - is this dynamic or static? Either way timing is way too low in that log where it's showing knock and I'm almost willing to say that as long as you have all of the rattling taken care of that the low timing is your problem. It looked like you were only running 5 to 8 degrees in that area before timing was pulled.
I haven't been into a lt4. Do they still use the restrictor plug in the back of the block and was this reinstalled after machining? Unfortunately the engine would have to come out to even check this, but your bearing clearances are showing that it should have that pressure and slightly more on 30 weight.
Simple enough you can always drain and change the oil to see if it's full of metal - if not then most likely somethings missing or bleeding off.