Lots of good stuff. I'd take issue with a few things based on what I've seen...
60K miles is to long btwn thermostats. I've seen them stick open and closed well before that. Keep in mind that some JDM therms are completely diff. Some are of all brass construction etc. Not sure about JDM 3SGTE though.
Only way to improve on OE bearings is to use race bearings. Usually they are of aluminum construction instead of softer tri-metal types. Of course the trade-off he doesn't mention is reduced embeddability. Any dirt/metal that gets to these bearings will trash the crank quickly. Not an issue for well designed race engine with better oil filtration/lubrication(ie dry sump) where high boost is used. An example; 1st gen 300zx had these but the 2nd gen went back to tri-metal type but made 300hp. My point is be careful about "improvements" if they don't fit your build.
His "starting to wear out mileages(kms)" seems low to me. Of course JDM 3SGTE could have more compression, they have better gas allowing more boost, and its a performance shop so customers probably have turned up their boost even more which is what brought them there in the 1st place.