Thanks George and Joe,
George re the alignment of the drive train, I guess my best bet is to rotate the flex joint with the rear wheels jacked up and the weight on the axle so it is sitting normally. If, when the prop shaft is rotated, the flex disk doesnt flex too much its probably close enough for Government work, if it needs to go up, the mount can be packed with metal spacing washers. Thats about as accurate as I can figure unless there are other suggestions out there.
Joe, thanks for reassuring me that I had the right flex disk. I have noticed though that the shouldered short bolts that face forward are too long. If I use them with only the supplied washer against the bolt head, then the shoulder will protrude forward of the transmission flange and stop the flex joint being tightened against the flange. They are also a touch too long and hit the transmission case. If I use two washers per bolt then its ok. The bolt shoulder will then not protrude outside the hole in the flange and I can get the bolt torqued to specs.
Thanks again to you both.
Cheers