Yes, you can e-file your federal amended return. You should be able to e-file your federal amended return, but if there are issues with e-filing you can mail it to the IRS.
NY will allow you to submit your amended return by mail or use their e-file system.
If you need to change or amend an accepted New York State Income Tax Return for the current or previous Tax Year you need to complete Form IT 201-X. Form IT 201-X is a Form used for the Tax Returns and Tax Amendments. You can prepare a New York Tax Amendment form on eFile.com, however you can not submit it electronically.
How to File New York Amendment
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