I think the scene that started this one conversation can definitely be goofy on its face but it depends on how it's setup, when it comes in the film, etc. The Riddler is addressing these things to Batman. They're almost assuredly containing riddles for Batman, Gordon openly calling in Batman and having him walk past all the cops can be a power move by Gordon within the department to say "we have to work with the guy on this" (Gordon basically says as much in the trailer) as well as towards Batman, making him come out of the shadows, not sneaking in and stealing evidence, but saying to him "you have to work with us too." This is Year Two, so Batman has been around and isn't going away, the police denying his existence internally isn't sustainable. (Legends of the Dark Knight had some good storylines along these lines of having to deal with his existence, namely "Prey")
Besides, Batman almost never works alone, that's the whole thematic arc of every Batman series over the last three decades. First it's Alfred, then Gordon, then all the Robins, etc. Even Nolan's films have him leaning on Alfred, Lucius Fox and Gordon from the very first film, not gradually and they're the most loner of Batman stories.
If this is still a trilogy then we're going to most likely see Batman get better and the relationships with everyone on both sides of the law grow. Gordon's going to be promoted and change the departments policy to where he puts a big ol light on the roof. This is showing the start of that. Batman is going to conversely trust Gordon more, develop his philosophy beyond "vengeance", get to know Selina, etc. By the third film the police will probably be relegated back to background characters we see after Batman does his war on crime, with some exception for Gordon to give us exposition, as the crazies come out of the woodwork and change the type of corruption in Gotham. That's what I read into Reeves' statement on the prior page.
