Fix extra run/fleet configuration properties not ignored when parsing - #4098
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The Pydantic v2 migration mapped these post root_validators to `mode="before"`, so `fill_data` began receiving raw input. A malformed `filename` reached `open()` as-is, surfacing as TypeError/AttributeError instead of a validation error.
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Fixes #4096
Also turns
fill_data()into an after validator to be closer to v1 semantics and avoid errors with traceback.