Exif maker note gets lost

I have a custom camera that saves some information in the exif maker notes (calibration data). The output is in normal JPEG.
I can see the custom data on all original file. But whenever a file goes through Adobe Lightroom 5 or Photoshop CS6, the maker note seems to be lost. I made sure to have the 'Include all metadata' option on.
Is this by design or is there something I am doing wrong here?

Yes, it is by design.
That is because maker notes are not preservable -- they contain unknown data that cannot be preserved after editing (or really any change to the file).
Previous attempts to preserve maker notes resulted in crashes on various devices and programs because the contents of the maker note were preserved and not updated (but couldn't be updated because the contents are unknown).

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