Everything Sounder said. The thing about the gaskets between the cylinder and the cover is the oil port is much happier when the mating surfaces are square. That is why you should use gaskets at the "other" end of the cylinder.
Honing, I would recommend just enough to put cross hatch marks all around, enough to assure there are no highs, maybe 15-25 seconds @ less than 500 rpm.
I would not recommend taking out all scratches. They won't harm the Oring unless very deep and wide, then you probably need a new cylinder. Any leakage from a few scratchs should not affect use. Dimensions of the cylinder are more important. That is just my opinion, fwiw.