Cryptic, I speak for myself when I say that the only thing I have not liked is the ship customize options for STO,
my recommendation for you would be instead of 3 options for every class of ship in every tier. allow the previous tier of ships parts to be available as well. until you reach RA and have All ship parts avail so the ship design can be some what more unique.
example
Ensign - Base ship
Lt. Com - Base ship + LT com ship options
Com - Base Ship + Lt Com + Com ship Options
Cpt - Lt com, + Com, + Cpt ship options
Adm Com + Cpt + Adm ship Options
RA All ship options
this way you can customize the various sections of the ships with more three parts options. I personally would have fun with the customize options for the ships if I had more choices. and this would be easier to implement then to program a full new set of choices for every ship type and rank.
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