Recess in the piston (where the rod contacts the master cylinder) is different in depth between the '68 and '69 master cylinders - the WT master has a different (piston) hole depth than the US cylinder. More than a few guys have found out the hard way when replacing masters and boosters -
If you are using a rebuilt master cylinder, you can bet the piston is a '69 - up version, which should use a shorter rod. The early kits are getting pretty tough to find with the proper piston for the application(s) that use the longer rods -
Regards,
Steve