[jimmontg]

I'm trying to understand you, do you mean when you switch the blade in the grinding jig the blade is in a different orientation other than right and left?

Also lining up the plunge line is a simple as making a scribe line as a guide and to mark both sides. You can attach a guide onto the grind jig too.

When you say the grind goes down and not up is confusing, up from the edge? up from the spine? you see why I'm confused.
In other words what kind of a jig are you using? There shouldn't be any change in the up & down position. Your jig should have the edge up with the handle sticking out in opposite directions for opposite sides of the blade.