This is normal and due to shared IDs, and the order the boards are listed.
You will need a programmer like the Atmel-ICE or any other programmer that will work with ARM based boards over SWD.
If you are having issues uploading, and you are certain you have selected the correct terminal port, you can try putting the board into bootloader mode. This is achieved by double tapping the reset button.
Note: When in bootloader mode, the SodaqOne appears on a different terminal port.