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I'm not sure if this is the best place to note this, but you can use Banjo's Backpack to export the midi files used within Banjo-Kazooie (instruments are messed up because a different soundfont is used, and some of the midis are multiple songs (EG underwater, main, etc), but it's a starting point).

I actually went though and exported all of the midis (they sound pretty bad when using the wrong soundfont).  I probably could upload a zip of them if someone's interested.

Nabnuts' House has already been completed. It can be found in "Click Clock Wood (Nabnuts' House)"

No idea how I missed that.  Removed from the request, oops.

["Nabnut's Storage Room" -- Completed by mariolegofan]

"Nabnut's Storage Room" -- Completed by mariolegofan
These are just some fun tracks that play in Click Clock Wood:

• Nabnut's house - Aquatic
• Nabnut's storage room

Here's the videos:

EDIT: Removed regular nabnut's house, as it was already there.

Engine Room might not be the official name (the video linked below uses "Machine Room"), but it's what I know it as.

Link to video.  There's also an unused aquatic version of the song if that's helpful.