Hi, if it's just an out of position thing why don't you just move the board over the required amount?
If you're using the same jig to locate the board for the other side then as the first side staring point is G coded at G54......the second side start position would be coded to G55 for the new start position.
I may be wrong on that assumption as I'm quite new to CNC and G code but it seems the logical way to go.
Ian.