I put all my GON mods in a folder called @GONHAX too.
I recommend taking a look at ArmArize too. It runs off the Six Updater network, but it's much more user friendly, and not as bloated as Six Updater (seriously, how many times must he update it each week, wasting 5+ minutes every time I launch it and have to update)...
I don't think Six Updater works with Games.on.Net #1 anyway. I tried it, and it didn't pick up any mods.
Disclaimer: I'm a Six Updater noob, and proud of it.