I'm not 100% sure, I tried like 4 different fast inserter mods and they all made all the alt recipes turn off, then the landfill and the trashcan one, I think it might be just ones that add new recipes? Again, not 100% sure, I'll test it more tomorrow. My son said on his file they just stopped working for him a while ago but he left it installed, he said the recipes all still show in the codex but you just cant craft with any of them, I'm not sure what mod made his break because he has way more mods than I do. I told him I had a whole factory setup using most of the alt recipes and I wasn't going to tear it all down, that I'd rather find a solution to keep it all intact. He said that he thinks his broke when he added the colored pipes mod in, but he added the water well mod and electric weapons at the same time and wasn't really paying attention to it. I just noticed it because I was only adding a single mod and saw all my assembly machines stop all at once.
Edit: He is right that they do still show up in the codex, along with the Alt Recipe category/tab. But for whatever reason the assembling machines and the crafting tab just don't give access to it.
I'm fairy certain that this is related to something that someone else posted about today with their Recipe Tab suddenly not showing up, at least it sounds that way to me, a similar problem, if not the same thing. I have other recipe mods that add new things, it just seems like its from anything new that I add now for whatever reason.