No, I imagine they will handle it like they do the special items (gauntlets, onion helm, etc) where when you create a new char those will be in your inventory automatically. When 1.0 was still up I had made a new char and it had all of the items I had registered codes for.
Like he said, all the account bonus data will be there. Onion Helm, Hermies' shoes, Gloves, etc., all "code activated" data will be there. I would assume that the Legacy Bonuses will be the same, except SE is writing in the code for you. Now, the Gobbou, that will not carry over because its an in game "prize," if you will.