It could cause an increase in CO production, depending on how you run the stove. If you want full power I would strongly recommend increasing the space allowed for air inlets by a factor of 2 - 3. That's not hard to do.
Be warned: that aluminium is going to get VERY hot, so getting the windshield off the stove at the end will be tricky. The handles on the pot are going to be way above boiling point (not glowing, but ...), so picking up the pot is going to be very chancy. Both can be solved by using a pot lifter such as the small light MSR one.