I understand the feeling, I actually take advantage of this flaw by creating very well mixed armies. In doing that I can focus on all types of enemies aside from dreadnoughts (My ranked matches don't usually last long enough for them to get one
). Gloating aside, I understand the prioritization system of units though I may be wrong in my interpretation.
Also, this is from a PHC perspective which is my main race
Unit list
Hermes: target frigates (used for radar)
Archers: target cruisers if present
Brutes: focus frigates (not enough damage to play much of an effect late game but still included for tanking capabilities)
Zeus: focus frigates with aoe lightning and the lasers guns more often than not go for the frigates as well
Nemesis: focus cruisers (obviously) but WILL more often than not focus a dread if present (this is my least powerful case)
Artemis: focus frigates but from multiple encounters they attempt to target a single unit that is near the most amount of units
Hades: will drop it's volleys as soon as possible on top of the first enemies
And that is what my strike force consists of with or without dreadnoughts
Granted, this is probably the type of force for all PHC users BUT with the right quantity of each type of unit in response to short observations of the enemy force, they can be defeated...
However, that was not the post. I'm pointing out that what they have DOES work, it just needs to be used correctly.
In my opinion, it would spice things up if they actually added a target priority system where you give an army a focus as to what needs to be destroyed first, second, third, and so if it's army v army. If manual targeting were allowed, I think it'd defeat the purpose of the planet wide war aspect where multiple battles could be happening simultaneously. It'd allow for more micro managing which I know very well that many good RTS players are masters at but this game focuses more on the big picture, the end game. If you were focused on fighting the enemies largest army who has a dreadnought, you should be trying to counter it by getting the dread destroying dread or spam nemesis units with a solid front of zeus and brutes to protect them. While that battle is happening, you could also focus on trading a blow against the enemy by taking a territory or two, reducing their resource income giving you a slight advantage to producing units for countering that dread. There are many situations where micro managing can help but in my opinion, more often than not, it won't.
That's my opinion and my case, please don't judge me if I'm wrong about anything, these observations of mine are based on battles that I've observed.