the ink levels are reported by the printer, so you will probably also get the 40% level by any other driver. The problem must be related to a hardware defect, e.g. there might be a malfunction with the ink level prism in the cartridge.
I just ran it up again and those two inks are now showing full. I don't know what the mechanism of these prisms is but it looks like it takes some time for the new cartridge to settle in.