Ah I see, disregard this thread, was just me not testing stuff properly. >.<
Previously unlinked and linked beams with AMC both fired constantly, just AMC ones ticked faster, thought that was still the case. Didn't read about them making the unlinked beams have a short pulse and a cooldown.
This is awesome though, means I can actually make trek style phaser beams that pulse for a quick burst and not look awkward staying on all the time. xD