When Microsoft releases firmware updates, these updates occasionally include improvements for your controllers. Unlike the Xbox One updates, which are applied automatically, controllers need to be updated manually. Headsets too are often updated so keep them plugged into the controller while you update. Here's a paragraph from the Microsoft Xbox One website about the controller update procedure. Follow this and see if it solves your problem:
To download the update, connect a controller to your Xbox One with a
USB cable. Keep any headsets connected to the controller. Connect to
Xbox Live. Press the Menu. Go to Settings > Devices & accessories and
select the controller. If you have multiple controllers attached, you
can select Buzz – which will cause the selected controller to vibrate.
Then select Update to download the new firmware to the controller
attached via the USB cable, and the screen will show the “Updating
controller…” progress screen. When you see the “Controller updated”
screen, press B to go back to the Devices & accessories main page.
Reselect the controller.