Why is this happening?
This is related to the Custom Controller Configuration that was available via the Steam Workshop, which has now been deprecated by Valve.
Will this get fixed?
The team has investigated this issue thoroughly, but there are no current plans on implementing a fix.
Is there a way to avoid this issue?
This issue only affects Valve products using Valve's new Controller System (i.e. the Steam Deck or the Steam Controller). Other devices, Xbox controllers or Keyboard & Mouse are not affected by this.