Glad you sorted it out morphias. I've had that problem with veteran cars that had huge cone clutches and shaft-driven gearboxes: it was necessary to shim all of four engine mounts in the vertical direction, and move the engine sideways both front and back, using a dial indicator between the flywheel and the gearbox input shaft, to get the alignment right. With those cars, once you get them aligned, you usually dowel them in position and stamp the shim stacks.