Only problem with things like that in a game where people min max is it gets stupid.
Nobody would want anything but the best of the best rest would be pretty well worthless. Even if it was a tiny tiny advantage.
Being able to create the main ship and then add ons for it would be nice. Something to encourage there to be uses for the different versions.
One new ship might be lets say a Centurion
one version has 4 guns and standard battery capability
another version ony holds 3 guns but battery is better
another has 2 guns but can carry extra drones.
Depending on what you're doing you'd want different versions.