The main problem you have here is not the angle as such but the spacing of the windows and them not being on angle at all (which wont happen unless you treat every window separately(take number 2 and AA from there), which would be a lot of work and still look odd as the windows which are the same would look different (so there still would be a perceived visual conflict)
Both yours and Ultimaodin's look equally off when applied to all windows, but I think aaing something like what Ultimaodin did (example 4) would work OK.
I did not even have to add new colours.
There still is the problem of the middle window being 2 pixels down from the 1st and then the last being down only 1 pixel from the middle one. For this I think there is no good solution apart from rearranging the windows to make them seem more even.
Anyway, if you AA these windows, I think you need to AA the rest of your shallow angles too, as well as other places to make it look uniform.
Good luck. I really like your effort on this and am enjoying each update.