You might want to think about enabling companies to create the company specific extensions themselves e.g. via a plugin API. You might still request them to pay for this version of Mito but they are enabled to extend it with their engineering power instead of relying on you.
We had good experiences with this at bamboolib (I am one of the co-founders) and in addition to recurring license revenue it also increased demand for consulting from our end because the internal company devs started working on plugins and then wanted our direct guidance on how to get the more tricky things to work.