Nintendo to Fix Skyward Sword Glitch

According to giantbomb,

Andriasang reports Nintendo of Japan has come clean, revealing players can download an entirely new channel called the “Zelda Data Restoration Channel” that should allow you to progress.

Skyward Sword’s glitch occurs “Song of the Hero,” quest, in which players are given three options how to proceed. If they choose to head towards the Lanayru Desert and complete that area first, the cutscene to trigger the subsequent legs of the journey may not pop up, rendering the game unplayable.

Source – Gaintbomb.com