Super noob here looking for some answers :)

[Ualaa]

Just to be sure...

With RAF, this is the procedure.

Go into your account settings, via the World of Warcraft site.
Send an RAF invite to your own email.
Use the link in the email to create a new account.
Go into the account settings for the new account.
Upgrade the account, with your full retail codes.

If you create a new account with the retail codes, rather than doing the RAF stuff.
You'll have your two accounts, but they won't be RAF linked and cannot be linked after the creation.

[Tim]

Ualaa is spot on with the RAF process, it is something you don't want to mess up, if you do it incorrectly your team might not fully benefit if you take a guy out or such.

If you did mess up RAF, you can always try and call Blizzard support and explain things. They CAN re-order your RAF, but it is rare, you have to find the right support rep, be nice, etc.

What they generally would do is completely cancel out all your accounts, and then they would re-issue you brand new keys, and they would register/bind them to your bnet account, and do the chaining. It takes like 30 minutes but I had to do it once myself