No longer capturing MOUSE_WHEELED events

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When using "ReadConsoleInput" to get INPUT_RECORD events I can't seem to get any MOUSE_EVENT_RECORD events with the flag MOUSE_WHEELED set.
This was working before Windows updated to version 1607.
It seems the console captures the mouse wheel for the consoles own scroll bar.
I do get the desired behaviour if I set "Use legacy console" but this is a global setting are there does not appear to be an api function to change it.
How do I get the console to pass through the MOUSE_WHEELED events?