From FCKeditor Docs

ToolbarLocation

This option sets the location of the toolbar. The possible values are:

• In : the toolbar is shown together with the editor, at the top of it. This is the default value.
• None : no toolbar is rendered.
• Out:[TargetId] : places the toolbar inside an element in the page. (see sample10.html)
• Out:[TargetWindow]([TargetId]): Place the toolbar inside an element present in a specific window (frame name). (see sample11.html)

Example:

FCKConfig.ToolbarLocation = 'In' ;