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Where is this limitation stated?Incorrect. One of your cleric domains must be the same as your inquistor domain.And don't forget that one of your domains will increase with your inquisitor levels.In fact, you get tree domains, two (first level) for cleric, and one (without the spells) for Inquisitor.
APG Page 38 under Domain:
"If the inquisitor has cleric levels, one of her two domain selections must be the same domain selected as an inquisitor. Levels of cleric and inquisitor stack for the purpose of determining domain powers and abilities, but not for bonus spells."
So cleric/inquisitor would get two domains, the 1st level powers and spells of both (thanks to cleric) and full cleric+inquisitor levels for the domain powers (not spells) of one of the domains.