Hola.
I also consider that the most practical thing we have in Paratext is to create the template that anon848905 mentions, if what you need is to put the notes in the same text. And manipulating the notes file can bring more problems than benefits.
I just want to add that: we also have options to put notes in the WordList. In this case the note does not appear in the text because it does not apply to a specific verse, but a word in question is added and this makes possible the observation of that note to all the verses where this word is present.
As an example, in the following image, a note on the word “chaynullami” will refer to the 272 verses (the red circle on the right) where this word is present according to my filter:
image1126×802 252 KB
When we create a note in the WordList, the note (the red circle on the left) is marked in blue, to warn that there is a note (like the red flags in the text).
This option is also available for Biblical Terms.
Saludos,
anon689242.