ill update this as i go along, but just a few minor things i notice:
youre going to have to be wleding in a lot of filler with a chopsaw, its not nearly as precision as it needs to be.. unless you are building it on the car (where you can make a million cuts and not worry about it) a thin blade band saw works well in this capacity. IF using a chopsaw, i found that the "brick" cutting blades work best,/produce the smoothest cut.
rE: the knock issue
theres a whole multi page thread on PT talking about it. Youre pretty much spot on, but an alternate cause, aside form the incorrect mixture one, is the octane one.. if you are running too low of an octane fuel for the boost you are pushing, you WILL detonate, regardless of quantity of fuel (so in this case the only saving grace would be some sort of timing retard, or just get better gas
but fattening up the mix wont help in this particular example)
the compression issue is a little understood one
i would expand on it to include base (static) compression plus effective compressions once youre running boost into the same engine. also to be noted.. an engine built with a higher static compression is going to produce more hp per lb of boost than the same engine running lower boost, at the expense of less room for error in your fuel tuning.
ill add more later but excellent write up