Hi Pawel Niewiadomski,
The Confirm in your post means your firmware need to be updated.
When the note happens, you should follow these steps:
1:power down your board
2:put jumper on J10
3:power on your board again and click "OK" in the Confirm windows.
waiting for the firmware update finished.
4. power off
5, take off the jumper on J10
6 power on, click yes on the window, then you can download the code.
Wish it helps you!
If you still have question, please contact me!
Have a great day,
Jingjing
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