Welcome! Please see the About page for a little more info on how this works.
The handling between jar and lib folders like git deps or local root are completely different. In my case, I have some config files in edn format (duct's duct_hierarchy.edn) exists in both jar deps and git deps. My additional conflict handler is never receiving the edn file that exists in git deps.
Is it the expected behaviour? I can imagine that even LICENSE or data_readers.clj would suffer the same issue. e.g. being overrided by files in git deps.
Logged as https://clojure.atlassian.net/browse/TBUILD-30
In particular, it would be helpful if the same :conflict-handlers functionality were provided in clojure.tools.build.api/copy-dir
Agreed that these should be the same handling, just an oversight.