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The fix for this issue is now available in the latest update (14.0.2) of InDesign 2019.
If you are unable to see the update notification, open the menu (three dots) from the top-right of Creative Cloud desktop application and click on ‘Check For App Updates’.
Once the update button is shown against InDesign, click on the button to update to Id 14.0.2.
If you face any problems with the new update, do let us know in the comments.
The list of fixed issues can be found at: helpx.adobe.com/indesign/kb/fixed-issues.html
Adobe InDesign teamAnonymous commented
14.0.2 does not fix this issue. If I import a docx with endnotes and set the endnotes to static, the note reference numbers come in with no superscript just as they did in 14.0.1. Imported the same docx into Indesign CC2017 with references superscripted. Incopy behaves the same way.
Am I missing a new setting? Can a hot fix be released?