Reading between the lines, it seems your issue is that you can't produce bookcases because the required reaction is missing for you?
Since others have been able to produce bookcases (and have had them working, apart from the eternal book caressing bug [now fixed]) the issue is probably not a general one. I've used the LNPs up until and including 0.43.03 with no issue (valuing a workding 32 bit DT more than the LNP for the current version), and have had no problem, so the LNP is unlikely to be the cause.
It seems you're messing with recipes: can you perchance have made an error somewhere that caused the bookcase one to fail to work?
I'd recommend downloading a fresh DF version (included in the LNP or otherwise), install it, create a new game in it, and see if you can make bookcases. If you can, add your mods, start a new game, and see if you can make bookcases.
Another question is where you try to make the bookcases: are you sure you're looking at the correct workshop (or, in the case of metal ones, the correct sub menu). You can also see if the manager contains bookcases to bypass the workshop issue.
Saves from 0.40.24 and earlier do not have bookcases, and any hacking to get them to be introduced into such saves will be your expedition into a poorly explored territory (with a rather limited chance of getting any books to place in the bookcases anyway, should the functionality to "build" them be supported).
This current save in 43.05, came from 43.03 and was a new embark, I use no mods, I only change the default graphic pack and away I go. Also this 43.05 is a new install. The bookcase is also not in the save 43.03. At the time I figured it was just not implemented yet, so I ignored it, come 43.05 and I notice its mentioned in the wiki, so I figured it is in the game. Yet, it still does not work. The only mention of bookcase in the game is in the in-game build menu, it does not appear in any workshops, same goes for scrolls etc. Even in <j> jobs, <m> manager it does not appear.
As for the file editing, I am only editing what I have researched, for all I know, there could be more references to it in other raw files. That I can not be sure of as I have not found much more than that. So far all I have done is created a new save which contains the recipes in the item_tools and entity_default files, and copied/overwritten it to my broken save, loaded the game up in the hopes it would work, but no luck. I can only guess there may be more raw files that need to be edited.
I have not dabbled in modding with dwarf fortress before this, if someone else can explain what I am missing and why bookcases refuses to work, It would be appreciated. I guess all I really need to know is which raw files contain all references to everything related to the bookcase. I don't want to re-invent the wheel if someone else has already done it.
Basically, I am trying to avoid starting all over, this is my first successful fort ever in all the embarks I have done and am currently 6 years in. Boy what an embark it has been, and am really enjoying it. If I was to start this all over because of some stupid bug, it will probably be the last time. Yes my loss, but time is precious to me.
Thanks for the reply