No, there shouldn't be any negative effect on either of those. Bluetooth dongles handle the bluetooth connection themselves and forward the controls over USB. As far as the console is concerned a USB controller is connected, which Mission Control doesn't interact with currently. The 8bitdo controller will be seen by the switch as an official Pro Controller and communications will be passed through mostly untouched. Mission Control will also allow 8bitdo controllers to connect using XInput mode, which may improve the accuracy of the analog stick slightly over switch mode.