Update time.
Spent a while in the garage over the weekend connecting everything back up. Engine and 'box slid back into place in a matter of minutes, its everything else that takes the time!
I'd decided not to change the clutch to rod operation at this point, but to get it back on the road with the existing hydraulic arrangement then change in the near future when I knew everything I'd done was sound. After all, it drove ok before so it'd be fine, right?
All wires/nut/bolts/parts refitted, engine started up, no gears

Clutch had some pressure, but wouldn't select any of the gears. I immediately started going through all the things I'd done, wracking my brains as to what I'd messed up. Then realised the clutch slave cylinder wasn't being actuated, or rather only a tiny bit. Very odd, the car had driven into the garage fine before I'd removed the engine and gearbox and I hadn't touched the hydraulics except to unscrew the slave cylinder from the side of the gearbox.
A long period of adjusting, bleeding and some moderate swearing ensued. I just couldn't get the system to work. Again.
I was hot (it was 26 degrees last Saturday), tired and hungry by now. I decided to rip out the hydraulics and fit the rod linkage. This took about a quarter of the time that I'd wasted trying to get the system working. Result = clutch worked immediately.....
The clutch is a bit heavy and a little "sudden" (as expected) so I plan on getting one of the legs on the relay shaft lengthened but it selects gears perfectly and feels great. I'm almost tempted to leave it as it is! I probably need to get used to it a bit, only driven it a couple of times on the new setup.
Fortunately, the gearbox seems to have survived being stood on the bellhousing. The serious washing out of the bearing must have saved it. I won't do that again!
Many thanks to all that helped me out on this task, your advice has been invaluable and much appreciated
ETA - it is a Midget clutch in there hence the heaviness!