Hi - similar problem.
I just bought a BF-2 off eBay and it doesn't work (duh!).
I have checked cables and power source and they are all working fine. The pedal switches on and off, light works etc., and if I turn the amp up high enough I can hear the "flanging" which changes when I turn the knobs - fantastic!
Only problem is there is no clean or flanged sound when I plug my guitar in. For some reason the input is not being passed through (checked with multimeter - earthis connected bt not the live).
Could this be a problem with the switch?
All help appreciated!