TL:DR: The bluechip recipe itself is fine as is - it is the cumulative effect of several bad recipes in a chain that gets really bad. So it's good that you adjust on several stages at the same time. Reverting to 1:3 ratio is great. It then mirrors the 4x improvement that basic wafers still get after upgrading to monosilicon. May I also suggest reducing the amount of monosilicon per advanced wafer from 2 to 1? Either that or reducing the amount of sand needed to make molten glass, or the amount of molten glass needed to make amorphous silicon. Just anything to get some more reasonable numbers.
I see you are also working on providing a bulk-crushing solution. But the problem isn't yield - it's throughput. Having a sink for excess stone is actually a good thing when considering excavators.
In detail: I fed 120 sand/second into 1 arc furnace to make it run at 100% capacity. (and then some more into a second one) That was barely enough molten to feed 8 speedmoduled chemplants (per stage) to make the mono - but then seeing only a tiny trickle of purple crystal coming out the other end, not even enough to keep 4 wafer factorys going... that was really a devastating sight to see after 2 hours of restructuring. I wish I had run it through Factoryplanner earlier to see that matching the output of my 16 basic- and 16 advanced-wafer producing machines with the upgraded recipe would require 900 sand per second - for a mere 33% savings on gold and crystals in case of the latter...
P.S: I wouldn't be opposed if you could reduce the amount of bluechips needed per simulation science pack from 6 to... idk... just lower it somewhat so it doesn't eat 6 times the amount of resources of all the other sciences combined.
Hope this helps.