Yeah I know what you mean. You gotta end process "explorer" when you launch BW. I usually create a .bat file to do that.
Code
taskkill /f /IM explorer.exe
C:\"Program Files (x86)"\"StarCraft"\"StarCraft.exe"
start explorer.exe
^Paste that into notepad and save it as a .bat file. Make sure to change the path of StarCraft.exe to where you installed it.