Mine seems to have plenty of clearance, not even close really. I've had other cats with this problem and have been able to adjust myself, or with someone helping hold the hood in place while you snug the bolts.
Try that, should have enough room to move it where you need.
The bottom of my hood rubs on the air box when I open it , but I dont see anyway to adjust it ,as far as closing it and having it go inside the bellypan I am used to lining it up because I am coming from riding the ZX chassis SkiDoo and you have to line it up every time.
KJ, did you have a skid plate installed? On mine, the airbox didn't get pushed back down all the way and it did exactly what yours is doing. I took out the screw in the front of the airbox and then took the airbox and pushed down really hard. I also took off the hood hinges for better access. No more problem!!!!
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