Your stroke is off 0.005", his is supposedly off 0.038", that's seven+ times as much as yours. That's why I don't believe his measurements. You could get that stroke by offset grinding 0.040" but the crankpin would be that much smaller then.

So I went back and checked his numbers again. Stated deck height is 10.6299, make that 10.630. The piston compression height is 1.926. That number should be nearly exact. The pistons average 0.071" in the hole. The rods are the familiar LY 535 rods, supposedly 6.768" long c-c.
The crank should be 3.750" stroke which means 1.875 radius.
10.630 - 1.926 - 6.768 -1.875 -0.071 = -0.010"
This means to me that the measurements we got from the OP are accurate except for the "stroke" measurement. Probable causes of the 0.010
" discrepancy are the rods are probably a bit shorter because they've been rebuilt once or twice, the 0.071" down in the hole average is more likely 0.068 and it is possible the crank is a little shorter or the block a little taller than measured.

SO,
1. Calculate your stuff with the published 3.75 stroke.
2. You could stand to take another 0.030 off the block to gain a little more compression. Because your cylinder head is a closed chamber design, you get much less cc reduction cutting the head 0.010" than the block 0.010".
3. Your block has definitely had the deck cut nearly 0.100". This means you're going to have a struggle to get your intake manifold to fit.
4. The Hughes answer on cams and head gaskets was just a cookbook answer. Many board members are using steel shim head gaskets with their aluminum heads. Also, the cam should work fine. I would suggest looking at the Lunati Voodoo line for an alternative.
5. If you just put the engine together like it is it will have decent power and probably run on lower grade gas. Maybe that's all you need?

R.