Rod Side Clearances

Measure the various items first, then decide. If you decide to take material off the rods - I'd use emery cloth (200 or 400 grit) on a flat surface to reduce the dimensions, polish the side margins of the rods, a slow but controllable way to handle things. Match them up slow - I'd just bring them into spec and call it a day. Make sure you check the specs according to a service manual. Have at it. I am the same way as you, pay attention to the details and the rest takes care of itself.