Working as designed. FFF only populates columns when you download or update a story. It doesn't magically fill columns otherwise.
If you set up a saved metadata column in FFF before downloading/updating most of those, you can use the 'Update Calibre metadata from saved column' mode to update your calibre metadata only. Note that FFF will go out to the story server to get metadata if you don't have it in the saved column for a story.
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