Check this out https://www.nasa.gov/content/flying-through-an-aurora

Also google image search for "space shuttle aurora"... spectacular pictures!

Ah, good point, I forgot that the ISS effectively passes through that region anyway.

Usually spacecraft are launched near the equator if possible, so aurorae aren't particularly prevalent there. Furthermore, since the atmosphere is ionized there, I'd guess spacecraft would avoid launching if it meant passing through it. Since atmospheric charges due to thunderstorms and clouds are already a concern I wouldn't expect an ionized part of the atmosphere to be any different.

Many spacecraft are launched into polar orbits. For the rest, it takes less fuel if you launch to the inclination of the launch pad. The ISS is inclined midway between the main US and Russian launch sites. Antares cargo rockets launch from a mid-Atlantic launch site because it's closer to the ISS' inclination. SpaceX's new Texas launch site is as far south as you can get in the continental US, and will be mainly used for GEO satellites that want to be on the Equator.