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Intonation Issue

I'd still like to see front & side shots of the nut and bridge. IME, something critical may have been overlooked based on the "nothing changes" when re-positioning the saddle from its full-forward to full-back.

This would also be a good time to hand it off to another local bassist and/or tech for a second opinion.

Riis
 
That is a real possibility. I'm using heavier gauge strings, LeBella flats. The E string is a 110 gauge. I'll check that out tomorrow.

That particular E string is next to impossible to intonate, in my experience, even with a proper fit at the nut. I’ve tried this very set three times, and as much as I love the thump of this gauge as a whole, the E is just a wonky beast. It’s endearing for what it does below about the 10th fret, but still wonky.