Why are secret spots mising in the Wii version of Zelda I?

Solution 1:

You have experienced the Second Quest.

The Second Quest is unlocked after beating the game. Dungeons, some shops, and Heart Containers are found at different locations on the map, along with the difficulty level being higher. The Second Quest was created because the developers had only used half of the allotted space for the map, and decided to use the other half for another quest.

It is possible to play the Second Quest right away by entering the name "ZELDA" when starting a new game.