Adding Domains for Cleric variant classes

[ted11]

My campaign has lots of variant rules for each of its 21 deities, on allowed weapons, armor, class skills, extra powers, even limited spell selection (continuing the vein of the 2nd edition spheres).

So in HL, I created a different class for the faiths (the ones used frequently anyway) to cover these many changes, doing New(Copy) from Cleric. But the domains don't seem to come out right, though I don't change the copied bit from base Cleric.

When creating a character in the new class, it says "Add more Domains (2 left)!", but when you click, it says "Nothing to choose from!"

Any help resolving would be much appreciated.