A few tools I've come across that I've used.

Doing [1] by Brett Terspstra; "A command line tool for keeping track of what you’re doing and tracking what you’ve done."

NA [2] (Next Action) also by Brett Terpstra; "A command line tool for adding and listing per-project todos."

nb [3] is "a command line and local web note‑taking, bookmarking, archiving, and knowledge base application"

nb supports multiple notebooks, Git-based version control and a bunch of other things

[1]: https://brettterpstra.com/projects/doing/

[2]: https://brettterpstra.com/projects/na/

[3]: https://xwmx.github.io/nb/#home