Hero of Legend
Member
https://topics.nintendo.co.jp/c/article/7be4e4bc-1d7b-11e6-8360-063b7ac45a6d.html
http://gonintendo.com/stories/258201-japan-minecraft-retail-release-due-out-june-23rd
What's funny, is that if you look VERY closely, while you may see the Mojang logo, right below it, actually says "Published by 日本マイクロソフト", 日本マイクロソフト being Microsoft Japan, just like the eShop release.
Well that's one way to not put your logo on the front cover a competitor's home console!
NA gets the retail release on June 17th. Only the PAL regions have yet to get a confirmation of a retail release to my knowledge, but I'm sure it'll be soon enough.
Edit: Added the high-res box.