2025›Instructions for Form 990-T›General Instructions
Interest and Penalties
2025 Inst 990-T (PDF) · 2026-10-03 edition · updated 2026-10-04 · United States
Your organization may be subject to interest and penalty charges if it files a late return or fails to pay tax when due. Generally, the organization isn’t required to include interest and penalty charges on Form 990-T because the IRS can figure the amount and bill the organization for it.
Interest. Interest is charged on taxes not paid by the original due date of the return even if the organization uses Form 8868 to request an automatic extension of time to file. Interest is also charged on penalties imposed for failure to file, negligence, fraud, substantial valuation misstatements, and substantial understatements of tax from the due date (including extensions) to the date of payment. The interest charge is figured at the underpayment rate determined under section 6621.
Late filing of return. An organization that fails to file its return when due (including extensions of time for filing) is subject to a penalty of 5% of the unpaid tax for each month or part of a month the return is late, up to a maximum of 25% of the unpaid tax. The minimum penalty for a return that is more than 60 days late is the smaller of the tax due or $525. The penalty won’t be imposed if the organization can show that the failure to file on time was due to reasonable cause. If you receive a notice about a penalty after you file this return, reply to the notice with an explanation and we will determine if you meet reasonable-cause criteria. Don’t include an explanation when you file your return.
Late payment of tax. The penalty for late payment of taxes is usually 1/2 of 1% of the unpaid tax for each month or part of a month the tax is unpaid. The penalty can’t exceed 25% of the unpaid tax. If you receive a notice about a penalty after you file this return, reply to the notice with an explanation and we will determine if you meet
reasonable-cause criteria. Don’t include an explanation when you file your return.
Estimated tax penalty. An organization that doesn’t make estimated tax payments when due may be subject to an underpayment penalty for the period of underpayment. Generally, an organization is subject to this penalty if its tax liability for the tax year is $500 or more and it didn’t make estimated tax payments of at least the smaller of its tax liability for the tax year or 100% of the prior year’s tax. See section 6655 for details and exceptions.
Trust fund recovery penalty. This penalty may apply if certain excise, income, social security, and Medicare taxes that must be collected or withheld aren’t paid to the U.S. Treasury. These taxes are generally reported on:
Form 720, Quarterly Federal Excise Tax Return;
Form 941, Employer’s QUARTERLY Federal Tax Return;
Form 943, Employer’s Annual Federal Tax Return for Agricultural Employees; or
Form 945, Annual Return of Withheld Federal Income Tax.
The trust fund recovery penalty may be imposed on all persons who are determined by the IRS to have been responsible for collecting, accounting for, and paying over these taxes, and who acted willfully in not doing so. The penalty is equal to the unpaid trust fund tax. See the Instructions for Form 720; or Pub. 15 (Circular E), Employer’s Tax Guide, for details, including the definition of responsible persons.
Other penalties. There are also penalties that can be imposed for negligence, substantial understatement of tax, reportable transaction understatements, and fraud. See sections 6662, 6662A, and 6663.
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