reading your comment, I feel a sense of dejavu because its almost the same as the response I would have written. I've gone through a similar path of trying every knowledge base under the sun and settling on a text based, git managed custom knowledge base with plain text files (currently managing +10k notes this way).

currently building a service that can index and query across text based knowledge bases. you can find demo here: http://demo.alphacortex.io

would love to hear your thoughts and talk further about organizing knowledge :)