The accolade was given during the CBSO's busiest touring season on record which will see more than a quarter of its 140 concerts performed overseas.
Japan’s top classical music magazine pooled the results from 44 music critics and journalists who were each asked to select the 10 best classical music concerts in Japan from December 1, 2012 to November 30 last year.
The CBSO, conducted by Andris Nelsons, performed four concerts in Tokyo in November, at the Metropolitan Art Space, the Bunka Kaikan and two dates at Opera City Concert Hall. It also gave performances in Nishinomiya and Fukuoka.
The first concert at Opera City with violinist Hilary Hahn and featuring the music of Wagner, Sibelius and Dvorak had the critics in raptures.
Junko Yoshida, from Asahi Shimbun newspaper, said: “One rarely attends a concert where the musicians and audience are so firmly united in the same delight and smiling at each other to this extent.
"It was an enjoyable performance full of revelations which seemed to indicate a direction that not only the musical world, but all human beings, should take.”
Stephen Maddock, CBSO chief executive, said: “This is phenomenal news and we are extremely proud to be awarded such a prestigious accolade.
“Japan has some of the best concert halls which attract capacity audiences to see internationally renowned classical musicians and orchestras perform on a regular basis, so this is high praise indeed.”
The CBSO's overseas schedule continues in March with a 15-performance tour taking in Paris, Vienna and Frankfurt, where violinist Anne-Sophie Mutter will play with the orchestra.