Only the intake side.
Match the center of the port to the piston size and angles.
Widen the port to what you feel is safe with the rings. I angle it to the piston too.
The only metal I remove from the piston is at the top of its ports, never the bottom or side.
I was originally going to fill in both sides with 1/8" aluminum fillers like this:
But I found it shrouded the reeds and this offered more power:
It turned out the detail there at the reed opening is very important.
This picture shows some of the "fill, cut, file, fill" sort of work getting it to work.
A lot of conventional guys don't like this approach. Definitely swimming up stream on this one.
If you don't like it easy enough to cut it out. This cylinder is still working for my son years later.
Planning on doing a similar job on his Banshee.
Steve