Is there a way to edit multiple Jabref entries? E.g. add the same data to an empty field, like "keywords", of multiple files?
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Yes, there is. Select the entries you want to edit, then choose "Tools">"Set/clear fields" in the menu bar. This will bring up a dialog prompting what field and what value (also with a "clear" option). There's also a checkbox allowing you to set only the empty field to a certain value.

Martijn
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This functon can be found under "Search" in JabRef 2.8 and above. – Mr.H Jan 18 '16 at 16:58
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On JabRef 4.3.1 it can be found at: "Edit > Set/clear/append/rename fields..." – A. Vieira Nov 15 '18 at 12:18
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On JabRef 5.0 it can be found under "Library > Manage Field Names and content"... and wow, those JabRef developers need to lay off the moving around of options... – nsheff Jul 08 '20 at 20:11