Non-Bible Notes Organization

Hi Everyone,
I know there have been a lot of previous posts about how to organize notes and note files so I apologize in advance for making another one, but I have a specific question that I'd like to pick your brains about:
For notes that you make in books that are not Bibles (i.e. monographs, systematic theologies, sermons, commentaries, etc.), is there an advantage (or disadvantage) to having one note file per book/resource that contain all your individual notes for that book/resource as opposed to a single generic note file for all your non-Bible books/resources that contains all your collective individual notes? (Note, this does not include notes for books of the Bible, verses, or notes about topics [i.e. baptism, hell, suffering] -- I organize those differently.)
Right now I have all my notes from various non-Bible resources collectively in a single note file titled "Notes in Logos Books." While this keeps my remaining topical & Bible notes organized and uncluttered, it is a bit cumbersome sorting through search results as I'll have 54 hits in various notes all under the one "Notes in Logos Books" file. However, if I have a different note file for each book/resource in my library, I feel like the notes section under the documents tab would become so cluttered I'd forget which topical notes I'd already made (does that make sense?).
I know there are mixed feelings about notes in general and many of you choose to use other note programs, but I was curious what your thoughts were for this specific organizational method.
Many thanks in advance. I appreciate all of you who take the time to respond.
PS - I'd also be interested to hear your thoughts on advantages/disadvantages of creating resource specific highlighting note files versus using the default highlight note files.
Comments
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I'm not sure if this is still true, but it used to be that a large single note file would bog down the program.
Second, I like the ability to open the Note file for a book and then see my notes and highlights just on that book. I don't make a lot of notes on commentaries. I put those in my notes file attached to the Bible with a link to the commentary.
It's a very subjective and personal thing.
Also, I keep all notes and highlights for a non-Bible book in one note file. So, for example, I'm reading Come Home by James MacDonald. I have all my highlights and notes in one place for that book. Then another for other books I read. Highlights and notes on the bible I attach to verses so they show up in any Bible I'm reading.
Yes this creates clutter, but search to filter and it's not a problem.
Dr. Kevin Purcell, Director of Missions
Brushy Mountain Baptist Association0