I think there's a lot to unravel here. Each have their pros and cons, and it really boils down to what you want and what you intend to do with it. From what I hear, it's easier to sell a PCB circuit than a stripboard one. Never heard of anyone buying a breadboarded circuit, lol.
Breadboard
No...
I second what Cybercow has said. You've also got a unique issue with the one knob fuzz (and other fuzz face variants) that is probably the main culprit. In these circuits, the audio path is thrown into the DC path and that's probably what you are hearing when both circuits engaged. See below...
Yes, into the ground rail (9V plugged in).
You can also play around with different values for C3 and C4 to find what you like.
The Test Kitched forum has some great breadboarding tutorials.
The bottom section is the power section. It uses a TC1044SCPA and few other parts to be able to provide -9V along with polarity protection (1N5817) from your wall wart or other power supply and powering on a LED.. If you're going to breadboard this first there is no need to use it. Simply flip...