Well, that didn't take long. In response to concerns that it is taking features away from the iPad Pro's Pencil, Apple confirmed in a statement to The Verge that the next iOS 9.3 beta will reinstate the Pencil's ability to be used as a finger replacement for the user interface navigation.
“We will add this functionality back in the next beta of iOS 9.3,” said a company spokesperson. Earlier today, MacRumors discovered that the most recent beta of iOS 9.3 has removed the ability for iPad Pro customers to use the Pencil to navigate the entirety of the iOS user interface.