All my notes are missing from my Mac native brain and the notes section is not able to be clicked on and written in.

The cloud version of my brain has everything like it should be.
That's strange, try restarting the app and if it's still occurring, email the output log and description of the issue to support (Help > Open Log Directory).

You can also check in the thought folder (Click the + and then Open Folder). In there is a notes folder, and in that a notes.html file. You can check to see if that has content in it, although it doesn't explain why you can't type in the notes section.
macOS 10.14.5
TheBrain 10.0.51

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