Apple has recently pushed out silent updates to both its Incompatible Kernel Extension Configuration Data (on 25 October) and Gatekeeper Configuration Data (on 27 October). These bring the versions up to 12.1.1 and 104, respectively.
As usual, Apple has given no indication as to what may have changed, and these presumably apply to both El Capitan 10.11.6 and macOS Sierra 10.12.1.
Also listed in my software update receipts is an update to the OSX1012IncompatibleAppList on 26 October, but that was so silent that it did not even register on the software installations, which is strange.
I have updated the listings.