I agree with your assessment of DECONSTRUCTING HARRY. I'd also say that his highly selective view of the city "has nothing to do with any kind of racial politics". One thing I learned from watching WILD MAN BLUES is that Allen is quite uncomfortable in unfamiliar situations. He does not like to meet new people. He travels to great cities like Paris and Madrid with his jazz band and stays inside his hotel room. Airport, hotel, concert hall, that's it. His sharp young wife serves as an intermediary between him and the world. Maybe this "treading the same kind of ground" is a reflection of his life experience. His limitations are mostly psychological, for his anxiety is real.
But every artist's reflection of a time and place passes  through highly subjective filters and Allen is entitled to his, particularly since he is not hiding them. Your point about Ozu's Japan is relevant. Know what? I don't think the Allen visits his native Brooklyn anymore. I don't think he's ever been north of Columbia U. to tell you the truth. That's ok; I've enjoyed getting acquainted with his little world anyway.
Asides:
Is ZELIG the first mockumentary?
Is OEDIPUS WRECKS (His contribution to "NY Stories") the only one where Allen ends up with a Jewish girl?
Will return after a brief vacation.
