Stingray bass intonation issue with compensated nut

Hello there. I wonder if anyone can advise me? I have a 4 string Stingray bass with a compensated nut. I have accurately intonated the bridge saddles for all the strings at the 12th fret in the normal way .. but I have a bad problem:

The first few frets are now flat by a significant amount – eg 5-7 cents for the 3rd fret. The evidence suggests this is the compensated nut. This is a huge downer as it is an otherwise great instrument. The most basic requirement for an instrument to…

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