I think there are a lot of systems like OneNote that you could use.
The principle is getting every thought you have about the project out of your head, just type as the thoughts are flowing. Leave and come back and organise later and make sense of it all. I agree with DA, separating the collecting, processing and organising helps, having a break between different brain processes helps make it easier to do.
The system just makes it easy to put down and pick up later on without missing anything.
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