Well, the intention is to have articles that are currently up to date with 7th edition (or last known information), but there is no harm in any articles including any retconned work.
So if the current fluff states that the City of Middenheim is a city in the Empire, then it's a city in the Empire. If it's a city built on the Tunnels crafted by the dwarfs, then that's what it is. If in the past it was a Dwarf City, then put down a Paragraph/Heading stating that the city was previously a Dwarven city.
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