I think you have to look at the reason why people shuffle pin a case.
This is done to cure a condition where the case halves move in relation to one another. I believe that the only way this can happen, is if the thrust loads are beyond the clamping force of a properly torqued case.
Too much end play, excessive stroke at high RPM, twisting and flexing of crank due to poor design, too high RPM or unbalance, lousy aftermarket case studs, etc. may cause this condition.
So, now what you do to cure this problem, is you put steel pins into the thick part of the mating faces, further weakening the case, as these holes ar now stress risers.
Why not just build the engine properly, paying attention to all the details, using good quality parts, balance all the engine components PROPERLY, and keep the RPM's at a reasonable level for your engine, and you should have a motor with a reasonable life expectancy.
Without shuffle pins.
Leave that to the high dollar racers who need that extra 500 rpm.
Csaba