Things have been added to the customisation folder over a long period of time, but I'd like to see a concerted effort to make everything modable.
Also, and I've said this many times already, I'd like to have the ability to place a '?' in the character skills and traits attributes, so that the game will randomise those figures for us. We have the ability to create thousands (that's right thousands) of characters, but who has the time for that? With this, it would be possible.
This should be possible with a mod management program.. if the game is launched through the mod management program, it could be told to randomize those numbers at each launch. On the other hand I haven't played with the numbers so I'm not sure if this would effect existing characters in saved games. Something to look in to.
And aomething that has bugged me from day 1; Give us the option for making our home systems our actual starting place! With most mods based on other sci-fi, we should have our modded races starting in the correct locations. Humans in the Sol system, Galactic Empire on Coruscant, Minbari's on Minbar for example.
The rationale for this is revealed in the Shakturi campaign. Read the messages and you can piece together that there's a reason you aren't starting in your home system. Of course if you aren't using the campaign it would make sense to allow this, but after all you can always rename your system.