A customer was flying his EICommander equipped GlasAir when the EICommander displayed a Timing Divergence Alarm. Upon landing the pilot/builder removed and inspected both of his P-mags. While nothing was amiss with the ignitions he did notice one magneto gear was sufficiently worn to cause the EICommander to issue a yellow caution alarm. Upon replacement of the offending gear and reinstallation of his ignition, the Timing Divergence Alarm returned to the bottom of the “green”.