Many of us have a NACA duct in that area. We also have an
access plate in the top of the duct so the inside of the "hell hole"
can be reached (with difficulty)
Just be aware that the area you are changing is extremely useful
for passage of (1) throttle, mixture, and carb heat controls
(2) fuel line (3) 12 V and ground wires (4) sensor wires
(5) rudder cables (6) aileron controls (7) cabin heat air or oil line
and vacuum line if you have such
The area is nearly impossible to reach unless the aircraft is sitting
upside down. ALL of the above (1-7) should be installed while you
have it upside down. Nothing there is easy to change later
I think there is a VERY high potential for you to find that the change
in the plans was NOT a good idea.
It will be VERY difficult to change back to the original configuration
after you do the cutting. I have a NACA duct there but I have often
wished that the air was coming in on each side ABOVE the strakes.
Lots of builders use downdraft cooling.
Bruce Hughes