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If you flag a single action, that's all that would show up in the flagged list. If you flag the project, it looks very similar to how it would look as if you had individually flagged each action in the project, but without all the clicking -- it's just a shortcut (though if you later add a new action in the middle of the project, it will also get flagged, unlike if you had simply selected all of the actions in the project and flagged them).