This solution from NI forum (S88 MK3 and Cubase issue - Page 2 — Community)
WORKED!!! for fixing the auofocus:
To fix the Komplete Kontrol/Kontakt “Autofocus” problem in Cubase, proceed as follows:
Open the VSTI Kontakt plug-in window, click “Function” menu (arrow at the top right of Kontakt window) or right-click at the top of this window and select “Remote Control Editor”.
Then in the window of “Remote Control Editor”, click on the small arrow (secon icon) at the top right to select “Get Default Factory Layout” and click the big button “Apply” on the same line.
At this time, “Autofocus” works. Then save the project.
The cause of this problem is when the Komplete Kontrol/Kontakt reference named “NIKBxx” is no longer assigned to the first “Knob” on page 1 in the “Remote Control Editor”.