1) i think the folder is "code" not "codes" but i dont use gcts so i am not sure
I use Gecko. It's named correctly.
I don't have the following
folders and
files in my SD Card...
boot.elf copy,
Code Manager (That shouldn't be in your SD Card anyway... lol),
config.dat,
installer.log,
LetterBomb.
It could be related to Gecko not reading the File Patch Code in your GCT File, so I would suggest trying to make one again... You did run Brawl through Gecko, right?