As much as I hate to say it, it looks like the front of the nose needs to come down to align the fenders and door gaps. That will make the hood clearance even worse.

How close is the hood to throttle body, and is it just the throttle body, or the intake as well? Will you have clearance for an air filter assembly? Maybe if its just the throttle body clearance, you can add a tapered shim between the intake and the throttle body to gain the clearance you need. Gene