Schedule C and SE Explained: A Guide for Independent Contractors

Josh Katz, CPA
Author: Josh Katz, CPA
Updated: October 22, 2025

For independent contractors and self-employed individuals, understanding tax obligations is essential to staying compliant with the IRS. Two key forms—Schedule C (Profit or Loss from Business) and Schedule SE (Self-Employment Tax)—play a crucial role in reporting income and paying self-employment taxes.


What is Schedule C?

Schedule C (Form 1040) is used to report the income and expenses of a sole proprietorship or single-member LLC. It determines your net profit or loss from self-employment, which is then included in your personal tax return.


Who Needs to File Schedule C?

  • Independent contractors
  • Freelancers
  • Sole proprietors
  • Single-member LLC owners (unless they elect to be taxed as a corporation)


How to Fill Out Schedule C

Schedule C is divided into several sections:

General Information – Business name, address, principal business activity, and accounting method.

Income – Total revenue from self-employment, including 1099-NEC income and other payments.

Expenses – Common deductible expenses include:

  • Advertising
  • Business insurance
  • Home office expenses
  • Legal and professional fees
  • Office supplies
  • Travel and meals (subject to IRS limitations)
  • Vehicle expenses (standard mileage or actual costs)

Net Profit or Loss – Calculated by subtracting total expenses from total income. This amount carries over to your Form 1040.


What is Schedule SE?

Schedule SE (Self-Employment Tax) calculates the Social Security and Medicare taxes owed by self-employed individuals. Since independent contractors don’t have an employer withholding these taxes, they must pay both the employer and employee portion themselves.


How Self-Employment Tax Works

  • Social Security Tax: 12.4% on net earnings up to a set limit ($168,600 for 2024).
  • Medicare Tax: 2.9% on all net earnings, plus an additional 0.9% on income exceeding $200,000 ($250,000 for married couples filing jointly).


How to Fill Out Schedule SE

  1. Use net profit from Schedule C.
  2. Apply 92.35% of net earnings as the taxable amount.
  3. Multiply by the Social Security and Medicare tax rates.
  4. Deduct half of the self-employment tax on Form 1040.


Why You Need to File Both Schedule C and Schedule SE

Filing both Schedule C and Schedule SE is necessary because they serve different purposes:

  • Schedule C reports your business income and expenses, determining your net profit or loss from self-employment.
  • Schedule SE calculates the self-employment taxes (Social Security and Medicare) you owe based on your net earnings from Schedule C. 

The IRS requires self-employed individuals to pay both income tax and self-employment tax. While your income tax is calculated based on your total taxable income (including self-employment income and other sources), your self-employment tax is specifically levied on your net self-employment earnings to fund Social Security and Medicare. Since these two taxes are reported separately, you must file both forms.

 

Totalization Agreements and Self-Employment Tax

For US independent contractors working abroad, Totalization Agreements can impact self-employment tax obligations. The US has agreements with several countries to prevent double taxation on Social Security contributions. If you reside in a country with a Totalization Agreement, you may be exempt from paying US self-employment tax if you contribute to the foreign country’s Social Security system.

If no agreement exists, you must pay US self-employment tax regardless of foreign contributions.


Tax Deductions for Independent Contractors

To reduce taxable income, self-employed individuals can claim deductions. Key deductions include:

  • Home Office Deduction – If you use part of your home exclusively for business.
  • Health Insurance Premiums – If not covered by an employer plan.
  • Retirement Contributions – Contributions to SEP-IRA, SIMPLE IRA, or solo 401(k).
  • Business Equipment and Software – Computers, phones, and software used for business purposes.
  • Education and Training – Courses related to professional development.


Estimated Taxes and Payments

Since taxes aren’t withheld from self-employment income, independent contractors must make quarterly estimated tax payments to the IRS (April 15, June 15, September 15, and January 15 of the following year).

Filing Schedule C and Schedule SE is an essential part of tax compliance for independent contractors. Understanding these forms, keeping thorough records, and taking advantage of deductions can help minimize tax liability. If you’re unsure about filing correctly, consulting a tax professional can help you maximize your deductions and avoid IRS penalties.