In which system? At the IRS? You will still get the first original full refund (and keep it) or need to pay the first tax due. You should not amend or change your return until you get the refund from the original return or your payment has cleared.
Normally amended returns take 16 weeks (4 months) to process. 3 weeks after filing you can check an amended return here.
https://www.irs.gov/filing/wheres-my-amended-return
Mailed Amended returns can take 6 months or more.
https://www.irs.gov/filing/wheres-my-amended-return
