Second Window Appears in 11.03 with iPhone Connected

Question

Every time I have my iPhone connected to iTunes 11.03, a second, unwanted iTunes window will appear. There is no controlling the window as in that I cannot close it, resize it, minimize it, etc. The only way to close it is to un-minimize the player and then close it, minimize it, etc. However, sure enough, a few minutes later, it will reappear.
This never happened in earlier versions and nothing has changed. The iPhone is simply charging and am just working on other apps as normal.
I have check for updates unchecked.
This only happens when the iPhone is connected.

Answer 1

I was hoping an update to my iTunes and iOS would have changed something but nope. I am now on iTunes 11.1.0.126 and iOS 7.0.2. Same problem but something strange has happened. Now when I attempt to sync a TV show to my iPhone, iTunes initially shows it being added to the purple Video section of the usage bar. But once the sync is done, the size of Video reverts back to where it was and the increase actually goes into the blue Audio section of the usage bar, after it finishes syncing. When I expand my iPhone view to the left I still see the show under "TV Shows" though. And I still don't see it in Video nor Music on my phone. But I found it interesting that even though iTunes initially added it to the Video section of the Usage, it puts it under the Audio section once it's done syncing.