Adding heat to increase the damage it does is a red queens race - the hotter the plasma, the more quickly it will defuse.
If anything, Id more want to go the other way - throw more and more mass out. But its still going to want to spread, and any heat energy that could be loaded into the plasma is going to be a pittance compared to the kinetic energy delivered by having a lot of something hitting a target while going really really fast - some of which will very shortly thereafter turn into heat, and heat in quantities that (I believe, but have not done nor could easily do the math) will radically exceed the heat energy you could stuff into a plasma.
Which is perhaps a long winded way of saying ‘worrying about the physics of a plasma cannon is a great way to stop having a plasma cannon and ending up building a laser, particle weapon, or kinetic kill weapon’ - so lets think about what makes a plasma weapon cool.. beside just saying ‘Fireee Plasssma Torpedooeesss’ - which is admittedly cool!
Maybe its AOE, and so drops damage with range, but at the same time doesnt take range penalties? Maybe it spreads across the target, hitting multiple facings? Maybe it applies a Damage Over Time effect? Maybe it -does- add heat to these non heat tracking units, forcing them to abort fire on some weapons, or to fire less weapons next round? Maybe it burns through armor and applies part of its damage straight to SI? Maybe it covers -lots- of the targets surface, ruining weapons and sensors?
What would be a fun to play game effect, that would add something cool/missing to the space game, that at the same time wouldnt rewrite the space game into being all about our new shiny toy?