I'm going to ask my bee inspector a similar question today about 'crowding out' and whether to keep supers on or not during Apiguard so I'll let you know what he says.
One thought occurred to me while reading your thread which is why bother to extract the honey if you intend to give it back to the bees? Why not just keep the frames aside (well protected against robbing) and put them back when you are ready?
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