AC43-13 does cover this, as does the RV builder's manual (at least my manual for the -7 does). Manufactured head on the thinner material, shop head on the thicker. The difference in strength and longetivitiy on the joint is minimal (some would say negligible), but there is a difference. That being said, for the reinforcing strips on the horizontal and vertical stab, put the manufactured head on the thicker material side, because it looks nicer and that's the side you'll be able to see once it's finished (if you look).