The 5 speeds came with 4:10 gears, but the automatics came with 3:73 gears. You didn't say if your 2.5 had 5 spd or auto. If you are going to run 31" tires (and never anything bigger), I would recommend 4:56 gears (with both trannys---the auto is undergeared from the factory----I know because that's what I presently have). If you think you might go bigger than 31" tires, I would go with the 4:88's. Without any gear change, you can get by, but you'll wear out the clutch faster (if 5 spd), and you'll probably never be able to use 5th gear on the highway. Remember, those 4:10 gears were for 205/75R15 - 215/75R15 tires (about 26-27") from the factory.
95 yj, 4 cyl, auto trans, 4:88 gears, detroit front locker, rear detroit with super 35 kit, short shaft conversion, 4" superlift, 32" superswamper radials