Ppant,
What are u exporting?
If dense cloud, then during export using chunk.exportPoints() method you must specify crs with crs = CordinateSystem see p.35 of API reference manual.
you could define crs as following:
output_crs = Metashape.CoordinateSystem("EPSG::9518")
and then chunk.exportPoints(...., crs = output_crs, ...)
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where EPSG code 9518 is WGS84 + EGM2008 height or you use any compound CS with geoid height..