Hi StratRat.
About the sound in bypass, maybe you should check the off board wiring, it is strange if you got a different tone.
You are building the Tycobrahe Octavia, right? That one with a transformer. Because that issue about the volume, a sort of too much gated sound (I can't explain it better) seems to be very common, at least I got it in my building.
But I have been helping, and further you can find the solution on this forum.
Anyway, you should have a 680k resistor, and it goes to the ground. You have to move the ground side and solder it to the C of the PNP transistor. You could try some lower value of that resistor.
It's been for me the solution and the circuit sound fine, now.