Hi @ignign0kt,
I have a very, very old BT dongle (can't remember the reference) which was working with Recalbox 4.0.2. This dongle doesn't work at all with version 4.1, for an unknown reason. I can see it, but no joystick can be associated with this dongle anymore. Anyway even if my pads can be associated with the internal BT of my RPI 3, I've juste purchased a new CLS BT dongle 4.0, and this one works very well.
Just my 2 cents to say that some old BT dongles don't work with Recalbox 4.1 😉