The older "squareback" alternators seem to clear the Eddy head a lot better. You might also need to play around with the length of the belt to get the alternator to sit in the right spot.
I had to grind a very small corner off of the LH head to clear part of the P.S. pump's return line.
Stock exhaust manifolds might work, but you might need 2 or more gaskets to create clearance, which obviously causes more problems with leaks, or at the worst cracks.