As an overview, you must change your crank to a stroker type. Using stroker w/ full counterweights, you must cut the crank to fit in this crank, then change the engine block as well as the piston to a 55mm bore kit. Cutting is also needed in the crank to fit in the cylinder. In honda DIO's mods, its necessary to cut a small potion of the piston to prevent hitting the crank during downstroke. Then, a bigger carb is needed, usually we use 30mm - 32mm OKO carbs. Then the manifold should also be changed to fit in this carb.
On the pipe, I may suggest if SEF power pipe is available & can fit in your engine, thats the best performing pipe here in the Philippine Scooter Racing Scene. I leave the advise of the experts on the transmission side.
Work on the stroker engine dude, at least your fellow scooter friends would see or feel a different speed on that. Goodluck Bro.