With the way Pirates seem to spew out endless deathballs of fleets I realise now I'm actually going to have to uninstall this mod.
Every "Strong" pirate fleet is awash with at least 8-10 Dragons and Amalgams and my colonies just cannot hope to build themselves up to withstand that.
I wouldn't call it a mod's fault for constantly sending out pirate fleets and usually with mods you have to accept there will be imbalance, especially ones that involves additions to enemies like pirates.
Although I do see a point in an content expansion for pirates having more heavier ships being troublesome if you're not used to tough pirates, I'd simply solve this by decreasing the chance they can spawn by lowering their values yourself in:
"mods/underworlds/data/world/factions/default_ship_roles.json"
It seems with all their variants combined both the ships you mentioned can spawn up to a value of 10, which is the default amount for many Starsector ships.
I'd go ahead and lower each value by 2 if you want to see them less for a total spawn chance value of 4 on each ship. An example in the spoiler below which you can then copy and paste or edit the numbers in their respective location.
Spoiler
(Make sure to ctrl-f the ship names to find these! These are under "combatCapital":{ in mods/underworlds/data/world/factions/default_ship_roles.json)
[I also highly recommend Notepad++ to read these easily]
"uw_amalgam_arm":1,
"uw_amalgam_ass":1,
"uw_amalgam_jun":2,
"uw_dragon_bra":1,
"uw_dragon_eli":1,
"uw_dragon_sta":2,
Remember that you can do this to any ships in that file and other mods, but do note however that by decreasing their value you will see other types of pirate ships more and won't solve the problem of a constant pirate armada Starsector sends.
You do not know how to play that game, and you say you are going to have to uninstall this mod, it is so funny.
I play with starfarer+spacer modes, and ai officers in each ship max 29 lvl (enemy is much stronger) and i do not have problems, pirates are weakest fraction as usial. And now my colonies are standing without my help, whitout planetary shields.
Before puting such messages just try to think what is wrong with you, not with mods.
8 x High Command
No need to rudely flex there, everyone's been frustrated by constant piracy, luddic cells, and ai inspections before.