I haven't understood the question yet roebuck. Is the taper the same? (Will the new flywheel sit on the taper and lock onto it when you press it down, with a large contact area?) Is the problem that the new flywheel has a smaller bored taper of the same angle, so it sits higher on the shaft?

It is essential that the taper has the same angle as the original, so if you put blue on the shaft, then carefully sat the flywheel on it then pulled it off without moving it, you would have close to 100% blue transfer to the inside of the flywheel's tapered bore.