Not sure on clearance of the 99/01 cobra hood / 03/04 V6 hood. However, you could probably get a hood that looks exactly like yours (minus having an OEM scoop) and modify it to alleviate the holes at the back, or since you already cut it, I would get your hood sanded and filled, so it looks a litter more professional. Other than that, amazing job!
2003 Redfire & Black V6. Full suspension, 8.8 w/ 4.10s, tuned. 4.3L stroker + turbo capable of 550 hp soon
DD: 2015 SHO PP, 12.87 @107 1/4 mile (1.8 60') on 93 octane tune/CAI only. SAE corrected: 369.4/451.4 on E20, full Bolt On