David,

 

You just need to set different gallery path:

 

private void Page_Load(object sender, System.EventArgs e)
  {
   Editor1.Setting["CuteEditorFileStorageType"]=typeof(SqlFileStorage).AssemblyQualifiedName;
   Editor1.Setting["DownFile"]=ResolveUrl("DownFile.Aspx");
   Editor1.SetSecurityGalleryPath("/test1");

 }

 

If you want to have different folder for flash, image, media and file.

 

   Editor1.SetSecurityImageGalleryPath(path1);
   Editor1.SetSecurityMediaGalleryPath(path2);
   Editor1.SetSecurityFlashGalleryPath(path3);
   Editor1.SetSecurityFilesGalleryPath(path4);
   Editor1.SetSecurityTemplateGalleryPath(path5);