As part of ANA's reorganisation, Air Nippon's domestic operations are being consolidated into the main airline. It had 12 Boeing 737-200 aircraft. ANA and Air Nippon used different liveries and IATA codes on domestic flights until April 2004, when Air Nippon adopted ANA livery and ANA flight numbers. As an ANA subsidiary, it is considered a full Star Alliance member. However, on Republic of China flights before April 2008, Air Nippon's IATA code EL was still used due to political reasons and these flights are not considered being Star Alliance flights.
In 1998 the airline was headquartered in Shinagawa, Tokyo.
The airline employed 1,686 staff (at March 2007). Until 2010, Air Nippon operated the wholly owned subsidiary airline Air Nippon Network operating feeder services; however, on 1 October 2010, Air Nippon Network was merged into ANA Wings.