Warning will disappear if you change the property "Simulated Size" to "Freeform".
As mentioned here you can fix this by toggling Adjust Scrollview Insets on/off.
I have changed from View as: iPhone 6S to iPhone 5S, then changed back to iPhone 6S, and Xcode did all the changes to remove the warning.
This worked for me at Xcode 8.3.1 After restarting Xcode, it would still work.
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