I got a 1998 honda civic that was misfireing in all cylinders. I replaced plugs , plug wires, cap, and rotary button and coil in distributor and I still have a misfire in cylinder 2. Anyone know what the problem is?

I had random misfire, misfire cyl#2,3,4. He replaced all that you described, along with Fuel Filter. At least now Check Engine Light is not ON.

parts and labor:
spark plugs, ignition cables, cap, rotor: $180.00
fuel filter: $55.00

Try replacing the Ignition Control Module. It may be failing and not firing when directed by the ECM.