I haven't seen a need to check this on older Yamahas, but shortening the end of the fingerboard by about 1/32" is a common technique used to improve intonation near the nut.
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could the same result not be achieved more easily by simply machining a ledge into the front edge of the nut?
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Yes, or by gluing a thin rosewood shim on the end of the fingerboard. That could be virtually invisible, and really easy to execute.