... I am going to buy a new transformer ... I will use the 660v taps and may have to drop the voltage a bit.
What's the best way to drop the initial voltage for the B+ supply? ...
Start with less a.c. voltage, so you don't have to find ways to lower it.
Really, if you're buying a new transformer, why not find a suitable transformer that gives you what you need? Worst-worst case, you could also call Edcor with your requirements and have them custom-wind a transformer to give exactly what you need.
330 * 1.414 = 466vdc, before the 5U4's voltage drop (but that still won't be anything like 100vdc). If you need 350vdc, it seems like it would be better to start with no more than 275vac.
... Another thing of concern is the 5U4 is seeing 94uF of capacitance. That is double the 5U4 data sheet capacitance. ...
Nowhere on the data sheet does it show a "maximum capacitance" even though many misconstrue the value listed under "Typical Operation" as a maximum. However, notice the line right below the capacitance value, "Total Plate-Supply Resistance per Plate".
If you suck more peak current through the rectifier (with More-C, Higher-V, or both), then you have to increase the supply impedance in the plate circuit of the 5U4 to keep it within its ratings.
What is this resistance? Measure the R of the PT secondary from CT to one end, and that is much of it. The R of the PT primary (referred to the secondary) gets added; however, you could skip this step and make sure just the secondary resistance is enough and be doubly safe.
If the R of the transformer is not enough, low-value resistors get added between the PT secondary and each plate to bring the total up to the needed value.