the air: the space above the ground or around things
into the air
Flames leapt into the air.
through the air
He fell 2,000 metres through the air without a parachute.
sky /skaɪ/ ●●● S2 W2 noun (plural skies)
1 [singular, uncountable] the space above the Earth where clouds and the Sun and stars appear
The sky grew dark, and a cold rain began to fall.
A shooting star sped across the night sky.
in the sky
There wasn’t a cloud in the sky.
So I would say "The spacecraft flew into the air" when it was off the ground a bit not too high. Whereas, "The spacecraft flew into the sky" when it was off the ground very high, maybe above the cloud.
What are the differences between "The spacecraft / airplane flew into the air" & "The spacecraft / airplane flew into the sky"?