First answer how and what for.
Protip: you can't. Case closed.
You can't? Have you seen the source code? Can you actually completely verify?
I meant you can't answer those questions.
How - do you expect people to actually test for various combinations of guns on each ship and somehow balance it in a reasonable time? Moreover: you expect
Muse to do it?
What for - the sheer adding of elements fixes nothing and, as you said, this is VERY easy to screw up. Unless you have some particular plan on how each gun would work on every or at least some ships (and how it enhances or balances the game) I see no reason to "fix" the game in this way. You mention some vague chance for aquiring balance, but that's not very convincing for such fundamental change.
Pointless thread is pointless.