Did we watch the same movie? Jiro spends THE ENTIRE MOVIE fretting about the aggression of his own country! Jiro literally spends THE ENTIRE LENGTH OF THE MOVIE lamenting that he has to build war-machines, when all he wants to do is build planes. He suggests taking the guns out of the Zero to make it lighter, and his fellow engineers laugh at him. There's even a line like "who do you think they'll bomb with this?" "China, America, Russia -- anybody. Everybody. And then Japan will blow up."
And Germany isn't set up as an antagonist, you clod; it's used as a parallell. Jiro meets that German engineer who describes the encroach of Naziism. Then the secret police come after him. Then the Japanese secret police come after Jiro. An angry Jiro asks, "How can something like this happen in a modern country?!"
Hell, the very last scene is Jiro walking through a nightmarish dreamscape of the planes he built, burning, lamenting that he had to build war machines, and wondering whether the whole thing was an act of futility.
I seriously don't think you watched the movie; I think you read a bunch of synopses and cobbled this together. To suggest that the movie "pussyfoots" around the subject of Japan's role in WW2 is either a demonstration of the most inept reading of a film I've ever seen, or a flat-out lie. It's literally the core subject of the entire movie. It's like you watched Schindler's List and accused it of supporting the Nazis. You have the whole thing so ass-backwards it's inside out.