You don’t have to amend the return on which the taxes were deducted. Instead, you report the income on the return for the year of the refund under the tax benefit rule. This rule says that you pick up income to the extent you received a tax benefit (e.g., deduction) for it in the prior year. Because the rules for deducting expenses of rental property are subject to the passive activity loss (PAL) rules, you may not have received a tax benefit requiring you to report the income (you would have to adjust your carryover losses). Discuss your situation with a tax professional.
Advance payment of current tax liability based either on wage withholdings or installment payments of your estimated tax liability. To avoid penalties, you generally must pay to the IRS either 90% of your final tax liability, or either 100% or 110% of the prior year’s tax liability, depending on your adjusted gross income.