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I created a custom Content Type with some new site columns (lookup columns, getting data from some lists). Then I created a document library and allow Management of content type in it.

Issue is, when I am going to Metadata Navigation Setting of this library, it is not showing the newly created site columns, but it is showing Content Type to add in hierarchy and filter.

I add a new site column(choice) in same content type, post the above activity, and now it is getting visible in Metadata Navigation Setting.

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The following list shows the column types that the Key Filters control can use as fields:

Managed Metadata

Content Type

Choice

Person or Group

Date and Time

Number

Reference - Set up metadata navigation for a list or library

Since lookup column is not supported, it wont show in the filter. You can only use the above column types.

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