Do you have it running or will it not start Roger, or have you tried to turn the engine over. I've worked on both mk3's and MKIV's so know my way around them both really.
If you post some pics up of how the car looks now and what needs plumming in, I may be able to help. I'll be struggling to get over for a look though, I've got Stevo's engine to rebuild, a mk3 to fit a bigger turbo, Ross's engine to strip and then Bossco's car is getting a greddy plenum so as you can see its a bit full on for me up to Xmas lol. I'm happy to help as much as I can though.