is there any kind of limitation to the damned Myrianous taking over my ships? everytime i fight this thing it takes over another ship every 5 seconds or so, i've seen the mind control wear off a few times so i know it isnt permanent, but it is a LOT longer than the cooldown for the ability, which is a problem. the longer the fight goes the higher the ratio of ships you dont control, and as soon as a ship is taken over every nearby ships instantly starts shooting it rather than the Myrianous.
i like challenges and all, but this game engine is simply not equipped to handle your ships being hijacked. 'avoid' doesnt prevent your ships from destroying your ships, and there is no way to tell your ships to flat out NOT attack something. this is a neat concept for a fight, and i do like the idea... but the inability to order your ships to NOT destroy ships under makes this nothing but frustrating. it simply isnt fun to have no control. game design 101, frankly. if you could order ships to ignore a ship entirely, this would work. as is... worst experience i have ever had in starsector. by far.
Yes, there are many limitations and weaknesses to the Myrianous' system. For example it is only as strong as its enemies. On a side note that's why that ship works against a staggering amount of Radiants. Don't bring your main fleet against it which is probably configured to deliver the biggest punch. Bring low firepower (it is a single enemy for god's sake) or peculiar ships (like phase).
A clean method would be assembling a bigger fleet with increased tankiness and little firepower (you may use only autocannons and no HE if you want to, get clever), and configuring the flagship to something non AI friendly. Ever made a super awesome build that wreaked havoc but the computer was utterly stupid with it? Those what I'm talking about. I never suffered any loss in this way. However, loss is not a bad thing and is very affordable in SS. This is a one off fight for a single reward. Just build what's necessary and throw it against the creepy boss, then take out your regular fleet from storage and forget about the past.
The next one is technically an exploit so make sure you want it before you read.
Spoiler
An unclean method is to abuse how the author wrote the AI. I suspect the use of the mind control system is on a timer which cannot take control effects into account for correct timing (=system AI is simple). Hence if you spam system overload on the ship then it most certainly loses the ability to mind control anything. Even a few Harbingers are enough. The fight becomes so unfair it's not even funny.
On second thought, this could be intended as the Goggergeck also works and it would make sense that Xhan Empire provided all the tools for defeating its own boss.