I want some fucking consistency and logic in the writing. Janome's character makes no sense. The explanations for his actions don't satisfy and don't make sense. And no, your explanation of the kidnapping plot doesn't begin to explain its' absurdities, in fact it just raises even worse plotholes. Kidnapping the girl to lure her out only makes sense if Yukimura had nothing to do with it, cause she'd never put the girl in danger that way. Nor would she have acted the way she did if she were in on it. If they could get at the girl without any issues they could've easily got at Yukimura too. Kuzuhara's presence evidently was not a concern at all. No matter how you slice it, as a ruse or as a genuine attempt to capture Yukimura, it's a convoluted mess that makes no sense.>The rebel plot is fine. Never seen a secret police? They go after peasants all the time.
These aren't secret police, they're an elite assassin squad. What if a major job came up while they were busy chasing down a handful of peasants? The reason you have elites on stand by is because there are situations only elites can handle. Literally any goon squad could have handled those "rebels", don't tie up important resources with trivial tasks.
It seems like a nitpick but it's shit like this that adds up to the author not really paying attention to the details in the story, and these kinds of details are important if you're writing action/suspense. Having strategies and plans that make sense is important, because executing them makes your characters look intelligent and competent, which is the whole point.
When your characters behave sloppily and there's no attention paid to any details, it feels like stuff only happens because the author decreed it to be so, which can work if you make it really campy and silly, but this show takes itself so seriously.