To delete a boot sector on a Flash drive copy all files you would like to keep onto another drive and reformat the Flash drive. The boot sector takes up space and deleting the boot sector will reclaim the space on the drive. Microsoft Windows operating systems all ship with disk management tools, one of which is the Disk Formatting utility. Format the Flash drive, and do not copy system files, to delete the boot sector on a Flash or USB drive.
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Insert the Flash drive into a free USB port on the computer. Windows will find the drive and list as a "removable drive" along with a drive letter.
Click the Windows "Start" button and click the "Control Panel" option.
Click the "System and Maintenance" option and then click the "Administrative Tools" icon.
Click the "Computer Management" option. The administrator password prompt will appear.
Type the administrator password and click "OK."
Click "Disk Management" in the left navigation pane.
Right-click on the Flash drive entry and select "Format."
Click "OK" twice. Windows will format the Flash drive.
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