Bike not running smoothly would suggest carbs need synching, but could also suggest a range of other problems.
When the carbs are out of synch, the cylinders are fighting one another because they are getting different amounts of fuel. Vacuum in each cylinder effects the amount of fuel/air flowing from the carb, so... vacuum differences between cylinders = different fuel/air rates even when the carbs are open equally = carbs need to be synched, which is the adjustment of the slide on each carb to compensate for vacuum differences and even out the flow of fuel/air to the four cylinders.
I don't know enough to diagnose your symptoms, someone else here may, but they will likely need more info.
I do know this: synchronizing carbs is what you do when you know that everything else (ignition, plugs, wires, valve clearance, timing, dwell) is good.