I'm going to be at a bit of a disadvantage here, as I am not familiar with the terminology over in the UK, but I'll give it a shot. Perhaps if AccordGuy sees this, he will respond, he's over on your side of the Atlantic and explains things very well.
If I'm reading the wire gauge
conversion table on Wikipedia correctly, 6mm wire is about #2 in American Wire Gauge. Good lord no! You don't need anything nearly that large for lighting circuits! All of the lighting circuits in my Housetruck are wired with #12 (2mm), and that is quite adequate for old-fashioned incandescent lamps up to 50 watts or so. The feeder bus from the batteries for the lighting circuit is only #6 (4mm), and it carries all of the loads fine.
The idea is to use oversized wire to minimise voltage drop between the batteries and the lights. A percent or two at mains voltage is insignificant, but at 12 volts, it can mean the difference between dull, dim lighting and proper brilliance.
Halogen lamps over here are commonly 25 to 50 watts, which corresponds to 2 and 4 amperes at 12 volts, respectively. If several of these lamps were installed on a single feeder circuit, you might want to bump up to #10 (2.5mm) or even #8 (3mm). If you are using LED lighting, then the wire requirements are even less demanding.
As for shucking the transformer on LED lighting, yes, it's quite possible, but might require some reverse-engineering to determine the operating current required on the individual LED arrays. LED's are constant-voltage devices, so they can run from a variety of voltage sources, but they are absolutely dependent upon proper current, which is determined by the current limiting resistor used in the circuit. If you want help figuring this out, I can help, but it will require having the LED lamps you intend to use, and some small amount of skill and nerve to rip into them and figure out that they will need.
In case you haven't yet seen it, I have a few pages dedicated to similar subjects:
http://www.mrsharkey.com/busbarn/electrics/chapt4.htm
http://www.mrsharkey.com/busbarn/electrics/chapt10.htm
There's an
index page for more info.
Also, Rob Gray just went thought a similar fit-out on Wothahellisat:
http://www.robgray.com/wothahellizat/wo ... /index.php
Scroll down to June 22nd and August 21st.
I am guessing that 3-core flex is similar to "Non-metallic cable" over here? Two insulated and one bare grounding conductor inside of a plastic sheathing? It would work for lighting circuits, and if installed properly, could be used safely for mains power if you ever converted over to that for lighting power. My Housetruck (and the Crown, when it's finished) use single-conductor wires inside the ceiling and walls. I knew that I would always use battery power for lighting, although my desk lamp is a 120 volt Compact Florescent powered by the 12-to-120 volt inverter.
Fuses. More fuses is usually better. If each lighting circuit has it's own fuse, then problems are easier to isolate, protection from overheating due to short circuits is better, and circuits can be reconfigured when necessary to power other loads. All of my lighting circuits are powered on individual wires all run to a central location (cabinet over the entry door). Some of the circuits are combined (for instance, the three ceiling lights are all on one fuse), while others are fed by individual fuses.
One tip: I know that your framing is timber, so it's probably not an issue, but I always have thought that running individual negative wires to each fixture was superior to using the frame of a vehicle as "ground" and commoning one leg to the frame or sheet metal. I've also heard that using the frame as a current conductor is more likely to cause galvanic problems in the framing and sheathing, resulting in oxidation, rust, and erosion of the metals.