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How difficult is changing the nut? I have similar strangeness on a PRS se - I’d used an old string to “file” the nut and put a little graphite lube in which made some improvements, but I still find the tuning and intonation quite unstable.
I was going to just drop the thing into a professional, but if nut swaps are relatively easy - actually, it’s more that if nut swaps are reversible, I.e. always retain the ability to back out and never cause permanent damage, then I’d give it a go.
Boring Tele setup update. I was mulling it over and had an idea that the neck could have been fitted at a wonky angle, therefore effectively making the length shorter on bass side and longer on the treble side, but in the end @ffm was right with it being a problem with the nut
Tusq nut now installed, setup perfectly and the strings sounds so much better.