The new propulsion system has made the current supply model a little iffy, but it can easily fixed up. You'd probably want ships starting at about 1000 total supplies from the Warp Core and moving towards 3000 at max tech. You'll want nacelles to use about 100 supplies combined per turn (50 each), that'd give ships a range of about 1 year to start without additional sources of supply (i.e. anti-matter pods, impulse engines). By max tech, ships could cruise for about 3 years without refueling contending that their journey is uneventful.
What I'd recommend is that you limit Bussard Ramscoops to 2 per ship and make them capable of resupplying at max tech about 50-60% of ship's propulsion needs. Make weapons take up a larger chunk of supplies when used so active combat ships will need to be re-supplied more often.
Is it me or do nacelles not require mounts to downsize them for smaller ships???
