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I know this is an old thread, but someone might find it useful, I had the same problem, and i fixed it by simple pressing the solve for camera. it seamed the axes where updating but the camera wasn`t, thus making it look like the axes where wrong. give it a try.
Hope this helps
Same problem...i also set X and Y axis and Z one goes bwaaaah.... i even did them to share Z axis, but no luck...
So bad that autodesk doesnt recognise this as problem...