Ok... so I'm an admitted Mass Effect & Star Trek fan...
You know how they should do a Star Trek game?
Take the first Mass Effect game. Create a personal captain similar to the creation of a Commander Shepard. Have a nice new federation ship filled with some fun & interesting characters. Have the ship be pretty big and explorable.... bigger than Mass Effect.
Take Mass Effect's world exploration & expand upon THAT aspect. Maybe some vehicle exploration, maybe some on foot, discovering new cultures. Maybe each world can have some problems that can be solved in various ways. You can be a very diplomatic Picard or a more aggressive Kirk when solving the problems for each world.
Perhaps your crew landing on the planet encounters and unknown alien life form and you have to figure out ways of defeating it. They can have some kind of 3rd person phaser shooting if necessary. Maybe some Tricorder mini games.
I'd focus more on space combat than ground combat... there should be some approaches in terms of space combat though. Managing your shields... maybe you can be diplomatic and avoid a fight altogether.
Crazy crap can happen on your ship while exploring space and you can consult your crew to figure out solutions.
There can be an overarching story involving one of the evil races up to some nasty stuff...
..I donno... is this too hard to do? Is this beyond game-creating capabilities? Because a true Star Trek game sounds perfectly feasible to me....