I saw the queen in this one - I think - she looked small, thin, emancipated.
Could this "smaller" queen be a virgin not yet mated?
She would be smaller if not mated yet.
Are your queens marked?
Try looking for queens without using your smoker,
sometimes they run from the smoke and can be
very difficult to find.
If you can find ONLY ONE live queen in the two weak hives,
try to buy a replacement queen, Though it's kinda late in
the season, or combine them.