So, if I understand correctly, you want to prioritise and time your notes.
I haven’t changed much to my system I wrote about here Eisenhower. The things I did change moved in the direction you described.
“Project main” is still the home for every project and they’re still not dated but tagged with a due-date. They hold the project’s planning, links to resulting notes and documents.
I used to tag the items on the planning checklist with dates so I could use saved overviews to see what was up today, tomorrow and this month. Didn’t really work for me; too many overviews and details.
So now I put the notes that are important on the agenda and from those I assign the ones that have some kind of urgency, to today (tomorrow, next week etc). I use the jump menu’s in OTA and “Today” a lot more than I used to. They’re really a great help.
If some sort of picking order is necessary, you could try and adept the project order in the sidebar and the note-order within projects.
Hope this was of help,
Rob