Ok, well I switched the capacitors to the opposite posts. The tone controls now work...but in reverse. So 0 is maximum treble and 10 is maximum bass.

The knobs are kind of the wrong way round as well, with the one near the jack changing the neck pickup and the one closest to the volume controlling the Humbucker. The sound out of the Humbucker has definitely improved, so thats good.

I guess swapping the pot positions around will be easy enough. Does anyone have any thoughts on the reversal of the pots themselves?

I'm not really bothered, at least it works now, but would be good to know if there is a fix for that anyway.

I dressed a couple fo frets that were buzzing again. Seems perfect now. I actually can't believe how low the action is on this thing. Its better than plenty I've played in guitar stores. I'm not really an expert when it comes to tone, but the overall sound out of this is really impressive. Can't wait to get some decent strings on it.