Well, then. Let's see what I'd lke (as if anyone cared...)
The Dominion!
The Cardassians!
The Ferengi playable
MONSTERS!!!
Miranda, Constellation, Valdores and STEAMRUNNER classes, as well as the romulan Scout nd Science ships from TNG. Oberth class. Soyuz.
I know i can get all those as mods or sumthn, but anyway.
MONSTERS!!!
A better version of phaser rings (yes, that's difficult, but this is what I WANT, not what I EXPECT)
Oh, and plasma torps more like seen in TNG (basically green photon torpedoes) and ... that would be cute: a switch to toggle between pulse and beam disruptors resulting in slightly different characteristics of the weapon.
did i mention monsters?