I would personally line them up with the pickup pole pieces and have slightly off spacing.
You will soon forget about the spacing as you play.
I was always worrying about this type of thing as well . I now stop fussing and just play. This will free up your brain and your playing will improve.
I totally sympathise as I've been through this as well as string height, width of nut, and pickup height.
All I can say is set to your liking and play and enjoy your instrument.
😀😀😀