clearml will register conda packages that cannot be installed if clearml-agent is configured to use pip. So although it is nice that a complete package list is tracked, it makes it cumbersome to rerun the experiment.

Yes mixing conda & pip is not supported by clearml (or conda or pip for that matter)
Even python package numbers might not exist on both.
We could add a flag not to update back the pip freeze, it's an easy feature to add. I'm just wondering on the exact use case