The heref references in Bavli (or any none tanach book, with exclusion of שלחן ערוך maybe) are interesting.
מנחות נג:, ב מנחות נג:, א
Are you referencing line numbers with hebrew letters?
Will the user actually see these references? If so, this might not be intuitive—it's not clear what the reference means. The Talmud (or any none tanach book) doesn’t naturally have built-in references to line numbers.

Perhaps I completely misunderstood the concept?
I’m assuming this is mainly for displaying search results?
on deeper anlsys it seems this is for comparison with sefaria but in that case - are you planning to enable direct db updates without having the user download the whle db? otherwise this is bloat on the user side?
well i am sure you know what you are doing me just a guy from the outside rmabling.....
i hope i am not disturbing.....

@KleiKodesh The IDs of the books or lines are not fixed accross db version, which poses a problem for creating a history, an annotation system; this will be used for that purpose and perhaps for a deeplinking system.

can you clarify please: what you mean by the ids of the books or lines are not fixed:
i assume this is on the sefaria side not your db?

@KleiKodesh The generator assigns an ID to each book in the order in which they appear in Sefaria, then Otzaria. If Sefaria decides to add a book at the beginning, this would shift the IDs of all subsequent books by one, and therefore also the IDs of the lines. As a result, these IDs are not stable and cannot be used for history, an annotation system, or even a deeplink system, which are supposed to remain consistent even if the database is updated.

apoligies i understand the concept yet i am still not clear on the final result
does this result in an id shift in the db too?
does this mean a regenration of the searchengine too?
rlrevance: i am busy implemnting a lightwehit dumb search engine for the word addin this maps the bookIds and line indexes or line ids.
it doesnt make a diffence to me which i use though line ids seems cleaner to me
if one of them is due to change with versioning then i would rather know?
if my logic is flawed i hope you can point this out to me.

@KleiKodesh Yes, the book and line IDs will inevitably change between versions, but as far as a search engine index is concerned, I think it is simpler to rebuild it entirely for each version rather than using this pattern, because books may be removed or added and you would then have to handle all of that.