sorry for the late responce. Don't check this forum much.
yes. on the 01-02 gsxr 1000 ignition rotor you will need to get the tooth machined out under the punch mark. Then it will slide on the 03-06 crank where the tooth is missing (filled in).
01-02 has the punch mark you line up. So you can put the ignition rotor on wrong if the punch marks do not line up. 03 and up has a tooth filled in on the crank and a tooth missing on the ignition rotor so it can only be put on the right way.