Choosing Your Retirement Plan: SEP IRA vs. Traditional IRA and Roth IRA—A Complete Guide for the Self-Employed

When you’re self-employed or running a small business, the retirement planning landscape looks very different from what traditional employees face. You can’t rely on an employer-sponsored 401(k), which means you need to take charge of your own financial future. The good news? You have flexibility and several powerful options at your disposal. Among the most popular choices are the SEP IRA, Roth IRA, and traditional IRA—each with distinct advantages depending on your income level, business structure, and long-term financial goals.

But which account actually makes sense for you? This comprehensive guide breaks down the key differences, examines the pros and cons, and helps you navigate the decision-making process.

The Self-Employed Retirement Landscape: Your Main Options

Before diving into the specifics, it’s worth understanding that the retirement account you choose will impact your taxes today and tomorrow. For self-employed individuals, three retirement accounts consistently rise to the top: the SEP IRA, Roth IRA, and traditional IRA. While they all offer tax advantages, the timing of those advantages and contribution limits differ significantly.

The hard part, as they say, is earning the money in the first place. The easy part should be selecting the right account to shelter and grow that wealth.

Understanding the Roth IRA: Tax-Free Growth and Flexibility

What Makes a Roth IRA Unique?

A Roth IRA stands out because it reverses the traditional tax treatment. Instead of getting a tax deduction when you contribute, you pay taxes upfront on the money you deposit. In exchange, your investments grow completely tax-free, and withdrawals after age 59½ are entirely tax-free—both your contributions and all the earnings.

This makes a Roth IRA particularly attractive if you believe your income tax rate will be higher in retirement than it is today.

Roth IRA Income Limits and Eligibility

Not everyone can contribute to a Roth IRA. The IRS imposes income thresholds that phase out your contribution ability entirely:

For 2023, you cannot contribute anything if your modified adjusted gross income (AGI) reaches:

• $153,001 or higher for single or head-of-household filers
• $228,001 or higher for married couples filing jointly
• For married individuals filing separately, the phase-out window is $0 to $10,000

Even if you fall below these limits, your maximum annual contribution shrinks gradually as your income approaches these thresholds. For those with lower or moderate incomes, a Roth remains accessible and powerful.

How Much Can You Contribute?

The 2023 contribution limit stands at $6,500 annually for most people, with a $1,000 catch-up contribution available if you’re 50 or older. This limit applies across all your IRAs combined—if you own both a Roth and a traditional IRA, your total contributions to both cannot exceed $6,500 in a single tax year.

Your contribution cannot exceed your earned income for the year. If you earned $4,000, your maximum Roth contribution is capped at $4,000 regardless of the annual limit.

Investment Flexibility Within a Roth IRA

Roth IRAs offer extensive investment options: stocks, bonds, ETFs, mutual funds, real estate investment trusts (REITs), and for some providers, even options contracts. This flexibility allows you to build a diversified portfolio tailored to your risk tolerance.

When Should You Withdraw From a Roth IRA?

One of the Roth’s greatest strengths is its withdrawal flexibility. Your contributions (not earnings) can be withdrawn at any time, tax-free and penalty-free, because this money was already taxed when you deposited it. This is invaluable if an emergency arises or if you want to fund a major life event like purchasing your first home (up to $10,000 lifetime) or paying for qualified education expenses.

Early withdrawal exceptions also apply to adoptions, births, medical insurance during unemployment, disability, and terminal illness. If you become disabled or terminally ill, you can avoid the usual 10% penalty entirely.

To access earnings tax-free, you must be at least 59½ and have held a Roth IRA for at least five years. Withdrawals before that age trigger both income tax and a 10% penalty on the earnings portion.

No Required Minimum Distributions (RMDs)

Unlike traditional IRAs, a Roth has no required minimum distributions during your lifetime. You’re never forced to withdraw money, allowing your tax-free balance to compound indefinitely if you don’t need it. This makes Roths ideal for leaving a tax-efficient legacy to heirs.

The SEP IRA: Maximizing Contributions for Business Owners

What Exactly Is a SEP IRA?

A Simplified Employee Pension (SEP) IRA is specifically designed for self-employed people and small business owners. It’s straightforward to establish, involves minimal paperwork, and has low administrative overhead—major benefits over more complex plans like 401(k)s.

Any self-employed person (freelancers, consultants, side hustlers with net business income) or business owner with or without employees can establish a SEP IRA. You pick a financial institution to serve as trustee, which holds and manages the retirement assets.

How SEP IRA Contributions Work

The beauty of a SEP IRA lies in its contribution flexibility. You decide how much to contribute each year—the percentage can fluctuate annually or even drop to zero. This adaptability suits variable income situations perfectly.

For self-employed individuals, contributions are calculated as a percentage of your net self-employment income (minus your own SEP contributions and half your self-employment tax). For employees, employers contribute the same percentage of compensation to each eligible worker’s account.

For 2023, the contribution limits are:

• Maximum contribution: 25% of compensation
• Dollar cap: $66,000 annually
• Compensation base: Calculated on the first $330,000 of earnings

So if you’re self-employed and earned $100,000 in net profit, your SEP contribution could reach approximately $17,500 after adjusting for the self-employment tax calculation—substantially more than a Roth IRA allows.

Employees cannot add their own money to a SEP IRA account; only employers contribute. However, workers can make independent investment decisions about how their balance is allocated. All contributions are immediately and fully vested, meaning employees own 100% of the money in their account from day one.

SEP IRA Eligibility Requirements for Employees

To be eligible for SEP contributions, an employee must meet all of these baseline requirements:

• At least 21 years old
• Worked for the employer for at least 3 of the past 5 years
• Earned a minimum of $750 in compensation during the year (adjusted for inflation)

Importantly, employers can establish less restrictive requirements if they choose. For example, you might contribute to SEP IRAs for all employees regardless of age or tenure. However, you cannot impose stricter rules. You are allowed to exclude union employees covered by collective bargaining agreements and nonresident aliens.

Tax Treatment of SEP IRA Contributions

SEP contributions are made with “pre-tax” dollars. For self-employed people, contributions reduce taxable income through a tax deduction. For employees, employer contributions aren’t counted as wages and don’t appear in gross taxable income.

Once inside the account, the money grows tax-deferred. When you eventually withdraw at retirement, those distributions are taxed as ordinary income at your applicable federal tax rate.

Withdrawals before age 59½ typically incur a 10% early withdrawal penalty, though exceptions exist for specific hardships. Starting at age 73, required minimum distributions (RMDs) kick in—a certain percentage of your balance must be withdrawn annually. The RMD age was adjusted to 73 in 2023 (previously 72) and will jump to 75 starting in 2033.

SEP IRA Investment Options

Similar to traditional IRAs, SEP IRAs offer stocks, mutual funds, bonds, ETFs, money market funds, and savings accounts. Investments typically cannot include collectibles, coins, or real estate that provides direct personal benefit. Employees should avoid non-publicly traded assets or anything they directly control to prevent complications.

Comparing SEP IRA, Roth IRA, and Traditional IRA: Head-to-Head Analysis

Now that we’ve covered the mechanics of each account, let’s examine how they stack up against one another.

Availability and Who Can Participate

SEP IRAs are restricted to self-employed individuals and business owners. You cannot open a SEP if you’re a W-2 employee with no self-employment income.

Roth IRAs and traditional IRAs are available to any person with earned income, including W-2 employees, gig workers, and side hustlers. Children with earned income from modeling or acting can even open IRAs. This broader accessibility is a key advantage.

Contribution Limits: How Much Can You Actually Save?

This is often where the decision hinges. For most self-employed people earning above $26,000 annually, the SEP IRA wins on contribution capacity. A $100,000 self-employed income allows roughly $17,500 in SEP contributions versus $6,500 in a Roth.

However, for earners under $26,000 and those who value flexibility across multiple income sources, a Roth IRA may provide adequate contribution room. Remember that income limits on Roth contributions can eliminate your Roth eligibility entirely if you earn above $153,001 (single) or $228,001 (married filing jointly).

A traditional IRA follows similar contribution rules to a Roth ($6,500 in 2023) but offers deductibility that phases out at higher incomes. Self-employed individuals might find a traditional IRA combined with a SEP IRA offers a middle ground.

Tax Timing: When Do You Get Your Benefit?

The fundamental difference between these accounts centers on when you claim tax advantages:

SEP IRA contributions reduce your taxable income immediately. This appeals to high-income self-employed people looking for an immediate tax deduction. You pay taxes later during retirement withdrawals.

Roth IRA contributions provide no tax deduction. Instead, you benefit from decades of tax-free growth and completely tax-free withdrawals in retirement.

Traditional IRA contributions may be deductible (depending on active retirement plan coverage), but like SEP IRAs, withdrawals are fully taxable.

The choice depends on your tax bracket expectations. Expect higher taxes in retirement? Choose a Roth now and avoid taxes later. Expect lower retirement taxes? Prioritize the SEP IRA or traditional IRA for immediate deductions.

Distribution Requirements and Flexibility

SEP IRAs and traditional IRAs require RMDs beginning at age 73. Roth IRAs have no lifetime RMD requirement, allowing continued tax-free compounding.

Roth IRAs also shine for early access. You can withdraw contributions anytime without penalty, while SEP and traditional IRA withdrawals before 59½ face the 10% penalty plus income tax.

SEP IRA Strengths and Weaknesses

Advantages:

• Simple and inexpensive to establish
• Immediate tax deduction for contributions
• Higher contribution limits than Roth IRAs for most self-employed people
• Tax-deferred growth on investments
• Flexibility to change contribution percentage annually

Disadvantages:

• Employers must contribute the same percentage for all eligible employees
• Only employer contributions allowed; employees cannot self-contribute
• Multiple eligibility requirements for employee participation
• No catch-up contributions for those 50+
• Mandatory RMDs starting at age 73

Roth IRA Strengths and Weaknesses

Advantages:

• Easy and inexpensive to open
• Tax-free investment growth
• Contributions withdrawable anytime without penalty
• Completely tax-free withdrawals after 59½ (five-year rule applies)
• No required minimum distributions
• Broader accessibility for anyone with earned income

Disadvantages:

• No tax deduction for contributions
• Lower annual contribution limits ($6,500)
• Income limits eliminate high earners from participating
• Cannot accept employer contributions directly
• Must meet five-year holding requirement for earnings withdrawals

Can You Have Both a SEP IRA and a Roth IRA?

Yes—and this is often the optimal strategy.

A self-employed person or business owner can maintain both accounts simultaneously if they meet eligibility requirements for each. Many successful self-employed individuals do exactly this to maximize tax benefits:

1. Contribute to your SEP IRA up to $17,500-$20,000 and claim the deduction, reducing current taxable income
2. Contribute $6,500 to a Roth IRA for tax-free growth
3. Employees funded by employer SEP contributions can also open and contribute to their own Roth IRAs independently

This complementary approach provides diversified tax treatment—some money receives immediate tax deductions while other money grows tax-free for retirement. When you retire, you can strategically withdraw from each account based on your tax situation that year.

Making Your Decision: SEP IRA vs. Roth IRA vs. Traditional IRA

There’s no universally “best” account because your circumstances are unique. Use these principles as a guide:

Choose a SEP IRA if:

• You’re self-employed or a business owner
• You earn more than $26,000 annually
• You want a significant immediate tax deduction
• You prefer minimal administrative complexity

Choose a Roth IRA if:

• You expect higher income tax rates in retirement
• You want flexibility to withdraw contributions early
• You want to avoid required minimum distributions
• You’re below the income limits
• You value the ability to pass tax-free wealth to heirs

Choose a Traditional IRA if:

• You’re a W-2 employee without self-employment income
• You want a tax-deductible contribution (if eligible)
• You’re below the income limits for Roth contribution deductibility

The Hybrid Approach: Self-employed people with consistent income often maximize tax benefits by using both a SEP IRA and Roth IRA—getting immediate deductions while building a tax-free retirement reserve.

Additional Retirement Account Options for the Self-Employed

If a SEP IRA, Roth IRA, or traditional IRA doesn’t fully meet your needs, consider these alternatives:

• Solo 401(k): Allows higher contributions ($69,000 in 2023) and employer + employee deferrals
• SIMPLE IRA: Designed for small businesses with employees, with moderate contribution limits and lower administrative burden
• Savings Incentive Match Plan for Employees (SIMPLE) 401(k): Combines SIMPLE IRA flexibility with 401(k) features

The Bottom Line

The retirement account decision isn’t one-size-fits-all, but it doesn’t need to paralyze you either. SEP IRAs excel at providing high contribution limits and immediate tax deductions for self-employed people. Roth IRAs deliver unmatched tax-free growth and withdrawal flexibility, plus accessibility for broader income ranges. Traditional IRAs offer middle-ground options with deductibility subject to income phaseouts.

The truly powerful move? For those with adequate income, combining a SEP IRA with a Roth IRA leverages both immediate tax relief and long-term tax-free compounding. Your job is earning the money; your retirement account’s job is protecting and growing it efficiently. Choose the structure that aligns with your timeline, income level, and tax expectations—then get the account opened and start funding it consistently.