Resurrecting this thread as I noticed something similar still happens with burst beams and cloaking interaction. Interrupting a Phase lance (or Tachyon lance, or any burst beam) shot by activating phase cloak will trigger a "short-cooldown" for the weapon, allowing it to be fired again a fair bit sooner than waiting for the standard cooldown.
While not a big deal for vanilla, as it doesn't affect the phase lance too much, and there are currently no vanilla phase ships with large energy slots, it can have a significant impact on some mod-universe burst-beams performance. Which can either have longer duration beams (less damage lost by canceling the shot early) or longer cooldown between shots (greater effective dps increase).
Included link to webm of this behavior with the vanilla phase lance:
https://webmshare.com/play/z47gK
