You obviously have 2 startups for the Shortcut Bar.
So just remove the one from your Startup folder and be done with it.
After you remove the one from your Startup folder, just log off/on and you should then just have one running.
At that time just right-click the header of the Shortcut Bar and Exit it. You will be asked if you want to just shut it off this one time or for all future times as well. Tell it all future times as well.
Then, just start up your Shortcut Bar the way you prefer. At that time you should only have that one registered.
For some reason my Microsoft Office 2000 Shortcut Bar loads twice when I boot up my machine. It just started doing this out of the blue. There is just one shortcut to the application in my startup folder.