Electronically Filing Your 1099s

Background 

The IRS lets businesses annually file their 1099 forms electronically (also known as e-File), instead of manually printing paper copies and sending them to the IRS. Businesses with 10 or more information returns (which include W-2 and 1099s ) MUST file electronically per the IRS.

For more details, check out the IRS’s Filing Information Returns Electronically.  

Keep in mind that when you e-File, you don’t need to file the summary Form 1096—this is only needed when filing paper copies. 

As a Patriot Software Accounting or Payroll customer, Patriot offers an option to electronically file (e-File) your 1099-MISC and 1099-NEC forms with the IRS. 

If filing 1099-MISC forms, you can also e-File with states participating in the combined federal/state e-File program.   See the resource page What Is Your 1099 State Filing Responsibility for the 1099-NEC?

E-Filing with the IRS is separate from printing and distributing 1099s to your contractors. At this time, you must individually print and send paper 1099s copies to each contractor.

Is there a cost to e-file?

Patriot will e-file 1099s for Full Service Payroll customers paying contractors through payroll at no additional cost.

If you have Accounting Premium, Accounting Basic, or Basic Payroll, here are the filing fees:

The fee will be charged to your credit card at the time you e-file. If your credit card charge fails, you must repeat the e-filing request process. 

If you choose not to have Patriot e-file your 1099s to the IRS, you are responsible for filing your 1099s and 1096 with the IRS and any required states.

⚠️ Submit your 1099s for e-filing 2-3 business days before the actual due date to ensure timely filing!

IRS Filing Deadlines

Although the e-filing window is open through April 15, your deadline might be sooner. 

Form 1099-NEC is due to the IRS by January 31 (both paper and electronic). If you file after the deadline, you are responsible for any IRS late penalties. 

Form 1099-MISC is due to the IRS by February 28 (paper) or March 31 (electronic). But, give your vendors their copies by January 31. 

Important information about the state e-filing program

Most, but not all, states with income tax participate in the combined e-file program. States with no income tax do not participate. 

• If a vendor is located in a state with income tax that does not participate, it will be your responsibility to file their 1099 with the state. You can still download a paper 1099/1096 form to send to the state via mail.

States that participate in the federal/state combined filing 

How to e-File Your 1099s in Patriot Software

Before you e-File your 1099s, make sure you have done the following: 

1. Check that you are within the January 1 to April 15 window for prior year filing. Otherwise, you need to wait until the e-filing window is open.
2. Go to Accounting > Your Company > Vendors. Confirm each vendor who needs a 1099 is set to “Yes” under “Create 1099.” 
3. Go to Reports > 1099 Contractor Reports > Missing 1099 Information to make sure all vendors have either their Employer Identification Number (EIN) or Social Security number entered. 
4. Go to Reports > 1099 Contractor Reports > 1099/1096 Summary to confirm the vendor payment amounts for the year are correct. These amounts will be printed on the 1099 forms and be reported to the IRS.

Once you are ready to e-file:

• Go to Reports > 1099 Contractor Forms > e-File 1099s
• If you are viewing this page between January 1 and April 15, confirm you have completed the tasks and click “Continue.” If you are not viewing this page between January 1 and April 15, you will see a message that e-filing is closed for the year. If you have already e-filed, you will be redirected to the “Create and View 1099/1096 Forms” page.
• If you are a Basic Payroll or accounting-only customer, review your e-filing fee. Patriot will charge this fee to your credit card once your 1099 e-filing has been submitted to the IRS. Click “I Agree.”
• Review the state for each vendor. Under the Combined Federal/State Filing Program, the IRS will automatically share your 1099 information with the appropriate states for no additional charge. If a vendor is located in a state that does not participate, “Not Supported” will be shown. If needed, you can change the state here. The dropdown list will only show participating states. However, you can still download a paper 1099/1096 form to send to the state via mail. Please visit our help articles for more details on filing 1099s per state:
  • 1099-MISC State filing requirements
  • 1099-NEC State filing requirements

• Confirm your 1099 information a final time before submitting it for e-file. You will see a summary of each Vendor, the 1099 reported dollar amount, and whether the 1099 is also being filed with the state. Check the box to agree that the information is accurate and agree to the e-filing fee, and click “Submit e-File.”
• You will see a “success” message that your 1099 e-filing was submitted.
• Your status will show “Pending” until we upload your 1099s to the IRS. When this happens, your status will change to “Uploaded.”

Print and distribute your 1099 forms

You still need to print hard copies of each 1099 to give to your vendors:

1. Go to Reports > 1099 Contractor Forms > Create and View 1099/1096 Forms
2. Click “Download Options” in the row with the 1099 type (1099-NEC or 1099-MISC) you want to print. You have two printing options:
   1. Formatted: This PDF only contains the information to be printed on a pre-printed IRS Form 1099.
   2. Print-Friendly: This PDF contains the entire form that can be printed on blank paper and distributed to your contractors and vendors.

For more details, see our help article, Viewing and Printing Forms 1099 and 1096 in Patriot Accounting Software. 

If You Need to Make Corrections or Additions After You Have e-Filed

You can only go through the 1099 e-file process in the software one time per year. If you need to make a correction after you have submitted your e-file, you must manually file a corrected return to the IRS. See the following articles for more info:

• Creating and Printing Modified 1099/1096 Forms in Patriot Accounting Software
• How to Issue a Corrected Form 1099-MISC

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