Is it really possible to take too many notes? Yes and no.
If you deliberately do an extensive activity your main objective should be to keep the momentum, and disturbances should be kept at a very low level. You may have to look a word up to understand a passage in a text, and that may be worth the price - though if you don't immediately find something useful it would probably be better to leave the passage behind you in the darkness and keep on reading. The same can be said about taking notes: if you can jot a word or two down without losing the continuity in your reading it is OK. Writing a long essay lures you away from the real purpose of reading the text (or listening to a film or whatever else you are doing).
On the contrary: if you have chosen to work intensively on a passive activity like reading or listening then your goal is to learn as much as possible from it, and then you have to accept to make the necessary stops. Or if you have planned to write an essay or do a talk in front of a paying audience then you will probably try to keep the number of errors as low as possible and the stylistic level as close to heaven as possible - and then you would probably do the kind of preparation that results in a heap of notes.
Another question: what do you do with your notes? And here I'll just refer to what I do with my old wordlists: I throw them away.
I may do one or two repetition rounds, but after that I don't want to continue wallowing around in the same old words. Either I have learnt them or for some reason I failed to do so, and in both cases my time will be better spent on making a new list with new words. The only exception to this attitude to notes is that I do keep notes I intend to use for a specific purpose, like a speech at a polyglot gathering. Those I gather in a special catalogue on my 'puter, and I guard them as zealously as Smaug the dragon guarded the hidden treasure in the Tolkien's Hobbit.
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