Don’t try to transform a paper notebook into a database. All those organizational tools are elaborate forms of procrastination.
What I do is write notes in the best format for paper: an append-only log with a date on top. Whether digitally or on paper, I rarely if at all need to consult notes from a long time ago, so the log is good enough for most use cases. In fact, as I mentioned elsewhere, writing by hand is not to store data, it’s a way to effectively digest information and incorporate it into your brain. You’ll get a lot of benefit of writing something and immediately throwing it away, so who cares about indexing it for later.
What I do is write notes in the best format for paper: an append-only log with a date on top. Whether digitally or on paper, I rarely if at all need to consult notes from a long time ago, so the log is good enough for most use cases. In fact, as I mentioned elsewhere, writing by hand is not to store data, it’s a way to effectively digest information and incorporate it into your brain. You’ll get a lot of benefit of writing something and immediately throwing it away, so who cares about indexing it for later.