Wuldn't holiness be taken into account by the H2 cost similar to the bonus abilities given to other magical disciplines? Illwinter's site says (in general) it is a 50% increase. Look at Pythium's Theurg however:
The Theurg costs 150gp/1rp and has magic paths of A, W, S2, H3. Ordering the paths from highest to lowest we get:
Basic Commander Price: 30gp
S2: 1st Path, level 2 = +90gp
W: 2nd Path, level 1 = +20gp
A: 3rd Path, level 1 = +10gp
-----
150gp
But wait a minute!
H3: Holy Priest = +50gp
So the Arch Theurg (according to Illwinter's scheme) gets H3 for free--not including the 50% sacred cost increase.