With reference my tone issue. An update. I've just disconnected all the pots and measured the resistance and capacitor values. Everything is good. The volume pot was obviously affected by being in circuit. I've just put the bass back together and it's working. The treble tone is doing something. It's more noticeable in series mode. It's not doing exactly what I expected (like a normal passive tone control) but maybe that's it? Sort of a very subtle effect. Just means I'll need to use the amp to get the old school sound?
Somethings still doesn't sound right. The treble control should work as any passive treble roll-off, which changes the resonance of the pickup as you sweep down. However, with the MFDs, and especially in parallel mode, the midrange resonance gets very pronounced. A lower-Z pickup will behave more like a gentle treble roll-off, but the MFDs respond more like a wah pedal turning up the resonance. The brightness is reduced, but you don't get deep "dub" like you can with a more traditional Fender with lower-Z pickups.
When the treble control is full up, do you get a bright sound with plenty of string and fret noise? I assume the active/treble boost circuits are working?