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Get your taxes done using TurboTax
You will not "lose" the amount you paid. If the IRS cannot apply it toward the amount owed for 2023, then it will simply be credited to your 2024 tax return, either as a credit toward your tax liability for 2024 or maybe even as as a bigger refund for 2024. Post back here after you talk to the IRS. We can help you with your 2024 tax return if the amount you paid cannot be used for 2023.
As for why they printed out----those vouchers print out pretty routinely especially when you owe tax due on the current return ---which you did. Those 1040ES vouchers are optional for use for people who are likely to owe tax due for the upcoming tax year. They help to avoid a big tax bill at tax time and to avoid an underpayment penalty next year. The software has no way to know that your self-employment income was only a "one-time" event.