Once your loans are out of default, the agency with the offset has to submit an order to remove you from the offset list. It sounds like that order hasn't been fully processed yet. I'm sure that the money will make its way to your loan balance, but I wouldn't be surprised if it took a few weeks for the payment to be applied since you're dealing with a couple different agencies transferring money.
The IRS has a 1-800 number that you can call to check your offset status, I don't know it, but I believe it can be found on their website. That number should give you a contact for the off-setting agency, and you can get in touch with them to see if there was a delay or error in processing the removal of the offset.
