You can't, macro config should go into their own files

Ah, that's a shame.... having to choose between correctly linted macros and duplicate configurations across projects

you don't have to duplicate your configurations across projects, you just make them part of your library

See https://github.com/clj-kondo/clj-kondo/blob/master/doc/config.md#exporting-and-importing-configuration

here is a list of examples: https://github.com/clj-kondo/clj-kondo/discussions/1528