The Unity licence fees have nothing to do with Nintendo, Unity have waived the licencing fees for Unity (probably after receiving a sizable lump sum from Nintendo). What Nintendo have done is waived the licencing fee for patches, but as far as I know developers still have to pay a Submission fee for them for Standards and Functional testing.
Developers also get a free licence for Greenhill's MULTI IDE, Havok middleware and Autodesk middleware.







