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Auto-FRD only works on your planets, not on enemy/neutral/allied planets, by design. Generally speaking if you have stuff in FRD on enemy planets it will just get chopped up. Is that what you mean?
If you press the FRD button (V iirc) when ordering a unit into another system it will stay in FRD mode.that is to say, you V+rightclick on a system in the galaxy map.