Updated for AA, JL, and QF...lots of 3-class routes gone. Likely to see at least one old AA route return in the short term with all the extra 772s in the system (though they will have F removed in the next few years).

American Airlines
Routes
Between Boston and
Miami (seasonal)
Santo Domingo (seasonal some flights)

Between Buenos Aires and
Montevideo

Between Chicago O'Hare and
Beijing
Dallas Fort Worth
London Heathrow
Shanghai
Tokyo Narita

Between Dallas Fort Worth and
Buenos Aires
Chicago O'Hare
Frankfurt (seasonal)
London Heathrow (some flights)
Madrid (seasonal)
Miami (seasonal)
Sao Paulo
Seoul Incheon
Tokyo Narita

Between Los Angeles and
London Heathrow
Shanghai Pudong
Tokyo Narita

Between Miami and
Buenos Aires
Dallas Fort Worth (seasonal)
London Heathrow
Los Angeles (seasonal some flights)
Santiago
Sao Paulo (some flights)

Between New York JFK and
Bermuda
Buenos Aires
London Heathrow
Los Angeles
Miami (some flights)
Rio de Janiero
San Francisco (some flights)
Sao Paulo
Tokyo Narita
Tokyo Haneda

Japan Airlines
Aircraft type
773 (not 777), 744 (some configurations only)

Routes
Between Tokyo Narita and
Bangkok (just 1 of the flights, ends Oct 09)
Chicago
Delhi (ends Oct 09)
Frankfurt
Hong Kong (just 1 of the flights)
Honolulu (just 1 of the flights)
London Heathrow
Los Angeles
New York JFK
Paris CDG
San Francisco
Sao Paulo (via New York JFK)
Singapore (just 1 of the flights, ends Oct 09)

Between New York JFK and
Sao Paulo

Qantas
Aircraft type
All A380 and some 747-400 (not 747-300 at all, and some 747-400 are 2-class).

Routes
Between Sydney and
Bangkok
Dubai (begins 31 MAR)
Hong Kong
Johannesburg (some days 2-class, temporarily sold as 2-class)
London Heathrow (via Bangkok or Singapore)
Los Angeles
New York JFK (via Los Angeles)
San Francisco (temporarily sold as 2-class)
Singapore (ends 30 MAR)

Between Melbourne and
Dubai (begins 31 MAR)
Hong Kong (temporarily sold as 2-class)
London Heathrow (via Hong Kong or Singapore)
Los Angeles (nonstop only)
Singapore (ends 30 MAR)


Between Bangkok and
London Heathrow

Between Hong Kong and
London Heathrow

Between Singapore and
London Heathrow (ends 30 MAR)

Between Dubai and
London Heathrow (begins 31 MAR)