The most frustrating part for me is that CMD-Tab'ing to, say, Hangouts will show me the Hangouts window. Now if I try to CMD-Tab to Chrome, it stays on the Hangouts window even though they are trying to treat them as separate applications (it's own application icon in the CMD-Tab bar, and a separate application menu from Chrome). This frustrates me on a daily basis.
But Hangouts injects its own icon in the CMD-Tab bar and the Dock. I feel like it this really shouldn't happen unless the app can truly be treated separately or else things start breaking or behaving in ways that the user does not expect ("it doesn't work like everything else" as does in this case).