My sense is that Microsoft is watching all of these types of threads... as well as the developer teams responsible for different apps (Like Xbox Video, etc..).. Windows Phone 8.1 is still in Development Mode... Hence we have a Developer Release. It is entirely possible that they will in fact role in allot of these request before final ship.
The options are simple: Accent/Transparency vs Fixed. Microsoft could give the option... Fixed would override transparency/Accent options. As stated many times.... it's up to developers to enable the option of Fixed vs. Accent/Transparency. The other option is Live/Unlive...
Let's see what Microsoft does. In the meant time.. attacking each other over preferences is a little much, no?