From orbit, only the "horizon" (edge of the planet) shows the red hue. Looking straight on, it's the familiar Class-M blue. So on the planet surface scenes, a red sky looking toward the horizon and a blue sky looking straight up would be correct.
It was shown that way for realism. Our blue sky doesn't make our planet look blue. But if you look at the atmosphere edge-on, the thin layer of atmosphere has a bluish tint. Straight-on, it's effectively clear. That's what the reddish orbital shot conveyed. When you look at our atmosphere from a ground position in daylight with space behind it, it's completely blue. The stormy sky in "The Apple" should have been completely red behind the clouds. Or at the very least, reddish. Not blue.