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Yes I have seen that and I think the root of the problem is there. I followed this to setup my Raspberry pi but this information is not up-to-date anymore. This is all based on Node.js version 8. When you do this setup it will install node v10.x.x so the latest command line npm install does not work anymore, so you first have to downgrade to node 8.x.x to complete the setup. But then the next problem dig up node red is only working with version 12.x.x or later.
So I think the setup is not working 100% and the incoming messages on BLE will not be relayed over MQTT
Not sure if you saw this already, but there is some example code here: https://github.com/espruino/EspruinoHub#mqtt-bridge