I think you should look into the log header idea, assuming it's what I'm thinking (similar to what old military jeeps had). It would give you room to not have to cut the fenders...maybe.
The only holes in the inner fenders will be the ones you see already cut in. The exhaust will dump on each side of the transmission to an X Pipe to mufflers dumped at the axle. Well I should say that is the plan.
