Currently Chrome design applies only to main window. Can it also be applied to floating windows?
This is how it looks under Windows XP. I currently don't have Windows 7 to try it out. May be it is OK there.
W7 matches the rest of the desktop on floating windows, so you may be experiencing an XP only issue.
Windows 7 Personalization of Windows Color to Windows Classic turns off Aero (and can be customized like XP):
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