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 I should mention input is grounded with the pedal off, when it is switched on neither input nor output are grounded and there is no short between them.
Just checked +9V , +5V, Vb and Ground rails and there is no broken connection.
Also checked 3pdt switch on continuity mode, works fine.
There is a page on geofex regarding getting little to no effect however it's broken 
Wonder what it said..

Just to clarify, are you getting no effect or no signal when switched on?

No effect. Signal goes through unchanged(I can't hear any difference anyway)

Bypass mode works fine, when switched on the led works but I get no effect.
I know the soldering looks sketchy at some places but I already reflowed every joint AND scratched between the tracks with an exacto knife (yeah every single one).
Voltages with pots at 12 ' clock:

Pt2399 voltages in Volts
1:4.94   
2:2.46
3:0
4:0
5:2.7
6:2.45
7:0.45 on the one close to the pots, 0.34 on the other
8:0.9
Right side :all pins are at Vref=2.46

Tl072
1:4.47   8:8.84
2:4.03   7:4.46
3:4.44   6:4.46
4:0         5:4.44

Bc550
C:2.25
B:0.69
E:0.11

These readings look completely normal so where should I focus?

I will build a probe tomorrow to test the signal path but I'm not sure I'm up to the task.

Can I use the rg keen probe with a tube amp or will that damage the amp?