If you wound up owing money due to 1099s from debt discharged in your bankruptcy, you need to amend your taxes. IRS debt would not in and of itself affect the citizenship application.
This is more appropriately asked in the immigration section, but I don't believe it should be a problem, except that there is talk of revoking passports of those with tax liabilities.
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You will have a better case to make if you have made arrangements with the IRS for making payments than if you are merely delinquent.
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It is possible that your wife will face some difficulties with her citizenship application due to the bankruptcy and back debt to the IRS. Your first step should be to contact an immigration lawyer. Secondly, you should contact IRS and set up a payment plan for the money owed. This will help your application tremendously. In your case, I recommend you contact an Immigration Attorney to help you and your wife decide when to file and what steps to take when you do. Good luck.
Mahsa Motlagh, Esq.
Principal at Motlagh Law Office
1415 W. 22nd Street, Tower Floor
Oak Brook, IL 60523