Same exact problem. Early on, I bought a Charr Tank Token and I never got a token, it just went right to guild storage. Unfortunately, since it said I would get a token, I did not rep the right guild before buying it, and it went into the wrong guild's storage. I'm fine with giving that guild a tank though, so I did not bother reporting anything. Then last night I earned another 500 chilis, then made sure I was repping the right guild, and bought another token. As in OP, the token just sits there after the consume animation, with nothing showing up in guild storage. Will file a bug.