I've always liked the idea of an SFB Universe game based on Harpoon. The players would be allowed to edit formations, equip units, and that sort of thing. The default settings would be sensible. I wouldn't get involved with a technology tree, but the player should have some control over the order of battle. A lot of tactics would have to be programed into the AI's, and weapon effects would have to be altered to balance the game.
The main emphasis would be on over-all strategy. Players would have to position pickits, command scouts, position defencive fleets, and direct offensives. Economies would be handled automaticly. The player would merely be informed of what resources were needed.