I think it's fine to leave it just the way it was when Phil owned it. It STILL had the Bonnevile speed records listed on the side of the car when it was 'abandoned'. It STILL had the original tires. It STILL had original 'dirt'. As I understand it the car is not going through a 'restoration' it's more of a 'freshen up' to the condition it was in at the time of it's storage. Phil quit driving it largely because it was still a 'race car', loud, stinky exhaust, hot, uncomfortable, barely street legal. You can see the sidepipes were left mostly intact and modified to exit the rear of the car.
Many of the Cobras and other cars went through various 'periods', different paint, different numbers, etc. You need to pick a time frame and work toward a restoration/freshen up that fits a particular time frame.