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Can Prefect2 work with Github Storage for the tasks like Prefect1?  We've been struggling getting it working - has anyone managed to do this, or should we just abandon it as storage?

Do you mean GitHub as flow storage? You can certainly do that. I think the simplest way to do that is to use projects: <https://docs.prefect.io/latest/tutorial/projects/|https://docs.prefect.io/latest/tutorial/projects/>