Org-mode was invaluable while I was writing my PhD thesis. I had long structured lists full of checkboxes and progress indicators showing everything I still nee

Org-mode was invaluable while I was writing my PhD thesis. I had long structured lists full of checkboxes and progress indicators showing everything I still needed to do. To add to the list I used org capture which is great for not breaking flow. Often while writing I'd think "ooh how did I refer to this in chapter 2?", capture that as a todo and carry on working. I also struggled with procrastination during my PhD so I use org-mode to implement the pomodoro method to great success. My notes actually document exactly what times I worked on each point. I've used it to document figures for publishing papers. The org file explains how each figure is made and reproduces the figures and intermediate data when executed. I freely mix programming languages.