The 747-400ER (Extended range) was launched on 28 November 2000 following an order by Qantas for 6 aircraft. This was ultimately the only order for the passenger version. The -400ER can fly an additional 805 km or carry 6,800 kg more freight. Qantas received the first -400ER on 31 October 2002.

The 747-400ER includes the option of 1 or 2 additional 3,240 US gallon body fuel tanks in the forward cargo hold. Manufactured by Marshall Aerospace, these tanks utilize innovative metal to metal honeycomb bonded technology to achieve an incredibly high dry weight to fuel volume ratio. Similar technology has been used in the development by Marshall of body fuel tanks for the 777-200LR and P-8A Poseidon MMA aircraft.