Closed box is safest, but even mild mods are hindered by a closed box.
As for a Pods being worse than the CFM box.....No. Pods shed water like off a ducks back. If you splash them hard the motor can die.....but a few minutes later you can kick it over fine. With K&N filters and Outerwear's, even if they get wet, they aren't going to protect the motor.
The CFM box is just a bathtub with filters in it. It kills power on higher modded bikes and really does more harm than good as a n air box.
I rode the entire length of the river at The Badlands in Indiana with Pods and Outerwear's. Try that with a CFM box and you will be cleaning carbs and rebuilding top ends like the OP.