So you dislike the infernal furnace for some of the other automated furnaces, doesn't modify that the furnace is capable. For golems it's just part of the thematics which are different with the scripts than for straight thaumcraft, some things are just more techy.
No idea what you needed 7 stacks of void ingots for, and attempting something like that all at once is a stupid thing anyway that shouldn't be complained about. Like trying to accumulate a hundred million EU and 500 wrought iron along with enough oxygen before starting any of the processing into steel, you do mass production of resources as a system, not trying to deal with thousands of items at a whim. Attempting to handle thousands of essentia at a time won't have crystallizers matter that much anyway, naturally a single crystallizer is unviable, a quick calc puts it at nearly 18 hours for 20 jars, and scaling isn't that useful either, even with 50 crystallizers it'd take 20 mins and a huge amount of infrastructure to even entertain the thought of that much parallelization. So you'd need centivis really, a single terra centivis can triple the speed of a crystallizer after all, those same 50 crystallizers at max speed should take about 30s, of course how you'd get the 1000 terra centivis I've got no clue, centivis is a late MV thing anyway, plenty late enough you should be capable of parallelizing and dealing with the cost of a few basic resources for a dozen crystallizers, if you can casually talk about 20 jars of essentia than you can deal with transmuting up an extra dozen steel or tin.
Primordial gear is hard yes, it's supposed to be, that's part of the point, if you want a dozen sets of primordial gear of course you're going to run into issues, that doesn't make the systems broken just because attempt to produce end-game gear en mass is expensive, the fact you're talking about setups that'd use hundreds of centivis and require solid HV equipment to craft but you complain about crystallizers not being as suited for early game TC makes no sense, you're just not describing those use cases, you're describing extreme edge case stuff. The pack has ways to deal with scale, either with thaumcraft or with thaumic energistics which you should probably be using as a HV faction with masses of resources, yes using golems, loci, and pumps can be more complex than just spamming crystallizers, that doesn't mean crystallizers should be cheaper though, why make the simple slower solution cheap? Pay for a spammable easy to use machine or design something using the other tools given. Or just use Thaumic Energistics.