A live stream from mission control in Monaco showed flight controllers erupting in cheers and applause as the plane touched the tarmac in central Japan.
The high-tech aircraft had set off from Nanjing in China more than 40 hours earlier, bound for Hawaii, a distance of some 8,500 kilometres that it was expected to cover in a six-day, six-night non-stop flight.
It was the seventh leg of a round-the-world flight that began in Abu Dhabi in March.
But mission controllers determined earlier today that weather over the Pacific that the plane would encounter as it neared Hawaii made the flight too risky and diverted it to Japan.