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Bertrand,
I posted this: https://forum.croco-ocean.org/question/490/adding-passive-tracer-to-a-buoyant-plume/ a while ago about the issue I had with adding a passive tracer in my buoyant plume simulations. I later found that the source code that computes tracer surface flux needed to be modified. I made some changes in the code and the results looked reasonable afterwards. Maybe you are having the same issue?