Tax-Efficient Asset Location: Stocks In Taxable Vs. Bonds In IRA?

Thayer Partners Thayer Partners February 09, 2026

Strategic asset placement between taxable accounts and IRAs can save business owners thousands in taxes annually while maximizing long-term wealth accumulation.

Understanding the Tax Treatment Difference Between Account Types

As a business owner, you're already navigating complex tax situations daily. Your investment accounts face similar complexity, but the tax treatment varies dramatically depending on where you hold your assets. Taxable brokerage accounts and tax-advantaged retirement accounts like IRAs and 401(k)s operate under fundamentally different rules that directly impact your wealth accumulation.

In taxable accounts, you face three types of investment taxation: ordinary income tax on interest and non-qualified dividends, capital gains tax on profits from selling appreciated assets, and qualified dividend tax rates that fall somewhere in between. The key advantage here is that long-term capital gains—from assets held over one year—receive preferential tax rates, currently maxing out at 20% for high earners, compared to ordinary income rates that can reach 37%.

Tax-advantaged accounts like Traditional IRAs and 401(k)s shelter your investments from annual taxation, allowing compound growth without the drag of yearly tax bills. However, there's a catch: every dollar you withdraw in retirement gets taxed as ordinary income at your then-current tax rate, regardless of whether that money came from dividends, interest, or capital gains. Roth accounts flip this script entirely, offering tax-free growth and withdrawals in exchange for paying taxes upfront.

Understanding these distinctions is the foundation of asset location strategy—the practice of deliberately placing specific asset types in the accounts where they'll face the lowest tax burden over your lifetime. This isn't about what you own, but where you own it, and the difference can amount to hundreds of thousands of dollars over a career.

Why Stocks Typically Belong in Your Taxable Accounts

Stocks generate wealth primarily through two mechanisms: price appreciation and dividends. Both receive favorable tax treatment in taxable accounts that you completely lose when holding stocks in Traditional IRAs. When you hold quality stocks for over a year, any gains you realize are taxed at long-term capital gains rates—significantly lower than ordinary income rates. Even better, you only pay these taxes when you actually sell, giving you complete control over the timing of your tax liability.

Qualified dividends from stocks also benefit from preferential tax rates identical to long-term capital gains rates. For business owners in the 24% or higher ordinary income brackets, this means paying 15% or 20% on dividends instead of your full marginal rate. That's an immediate savings of 4% to 17% on dividend income, year after year.

Perhaps the most powerful advantage of holding stocks in taxable accounts is the step-up in basis at death. If you purchased stock at $50 per share and it's worth $500 when you pass away, your heirs inherit it at the $500 basis—completely eliminating $450 per share in capital gains that would never be taxed. This wealth transfer strategy is unavailable with IRA assets, which your heirs must eventually withdraw and pay ordinary income tax on.

Tax-loss harvesting provides another strategic advantage exclusive to taxable accounts. When individual stocks or funds decline in value, you can sell them to realize losses that offset other gains or up to $3,000 of ordinary income annually, then immediately reinvest in similar (but not identical) securities to maintain your market exposure. This strategy can generate significant tax alpha over time, effectively subsidizing your investment returns with tax savings.

The Case for Holding Bonds and Fixed Income in Tax-Advantaged Accounts

Bonds and other fixed-income investments generate returns primarily through interest payments, which receive the harshest tax treatment available—ordinary income rates. Unlike stocks, there's no preferential rate, no qualified dividend treatment, and no long-term capital gains advantage. For business owners in high tax brackets, this means losing 37% or more of your bond interest to federal taxes alone, before considering state taxes.

This tax inefficiency makes bonds ideal candidates for tax-advantaged accounts. When you hold bonds inside a Traditional IRA or 401(k), all that interest income grows completely tax-deferred. You'll eventually pay ordinary income tax on withdrawals, but you were going to pay ordinary income rates on the bond interest anyway—so you've lost nothing while gaining years or decades of tax-deferred compounding.

High-yield bonds, REITs (Real Estate Investment Trusts), and other income-focused investments become particularly tax-efficient when sheltered in retirement accounts. These assets often generate substantial ordinary income that would create significant annual tax bills in taxable accounts. By holding them in IRAs, you convert what would be a yearly tax drag into deferred taxation, allowing more of your money to remain invested and compounding.

The math is compelling: a bond yielding 5% in a taxable account nets you only 3.15% after taxes if you're in the 37% bracket. That same bond in an IRA delivers the full 5% to compound year after year. Over 20 or 30 years, this difference compounds into substantial wealth accumulation—wealth that stays in your investment portfolio rather than going to the IRS annually.

Real-World Asset Location Strategies for Food Production Business Owners

Food production business owners face unique considerations when implementing asset location strategies. Your business likely generates substantial ordinary income during peak production seasons, potentially pushing you into higher tax brackets where asset location becomes even more valuable. During these high-income years, maximizing contributions to tax-deferred retirement accounts and filling them with high-income-generating bonds provides immediate tax relief.

Consider a practical allocation approach: place your equity index funds, individual growth stocks, and equity ETFs in your taxable brokerage accounts. These investments benefit from long-term capital gains treatment and give you flexibility to harvest losses during market downturns. Meanwhile, allocate your Traditional IRA and 401(k) to investment-grade bonds, high-yield bond funds, and REIT exposure—all assets that would otherwise generate substantial taxable income.

If you've established a Roth IRA, consider using it for your highest-growth-potential investments. While conventional wisdom suggests bonds for IRAs, Roth accounts are unique because withdrawals are completely tax-free. This makes them ideal for investments you expect to generate the highest absolute returns over time—potentially small-cap stocks, emerging market funds, or sector-specific equity positions. The tax-free compounding on your best performers maximizes the Roth's unique advantage.

Business owners should also consider their overall asset allocation across all accounts as a unified portfolio. You might target 60% stocks and 40% bonds overall, but achieve this by holding 80% stocks in taxable accounts and 30% stocks in retirement accounts. This approach maintains your desired risk profile while optimizing tax efficiency. The key is thinking holistically about your total investment picture rather than treating each account as a separate portfolio.

Implementing Your Tax-Efficient Investment Strategy Without Disrupting Operations

Transitioning to a tax-efficient asset location strategy doesn't require selling everything and starting over—a move that could trigger substantial capital gains taxes and undermine the entire purpose. Instead, implement changes gradually as part of your normal portfolio management. When rebalancing or making new contributions, direct new money to the appropriate account types based on your asset location strategy.

Start by assessing your current holdings across all accounts. Create a simple spreadsheet listing each account type, current holdings, and their tax characteristics. This inventory reveals opportunities for improvement without forced transactions. Perhaps you're contributing to your 401(k) and automatically investing in a target-date fund that holds both stocks and bonds—consider switching future contributions to a bond fund while leaving existing investments untouched.

For taxable account holdings with substantial unrealized gains, patience often beats action. If you're holding bonds in your taxable account that have appreciated, the tax cost of selling might outweigh the benefit of relocating them. Instead, simply stop reinvesting the interest payments and redirect that cash flow to stock purchases in the same account. Over time, your allocation naturally shifts without triggering unnecessary taxes.

Business owners should coordinate asset location decisions with their overall tax planning strategy. In years when business income is lower—perhaps due to equipment investments or planned operational changes—you might strategically realize capital gains in taxable accounts at lower rates, or even convert Traditional IRA assets to Roth accounts. These moves become more powerful when integrated with your business's tax situation rather than viewed in isolation.

Finally, remember that asset location is a long-term wealth-building strategy, not a short-term trading tactic. The benefits accumulate over decades through tax savings that compound alongside your investments. Implement your strategy methodically, review it annually as part of your broader financial planning, and resist the urge to constantly tinker. The business owners who benefit most are those who establish sound asset location principles early and maintain them consistently throughout their wealth accumulation years.

Stay Informed with Thayer Insights   Subscribe to our blog for the latest market insights and updates.  
This material prepared by Thayer Partners is for informational purposes only.  It is not intended to serve as a substitute for personalized investment advice or as a recommendation or solicitation of any particular security, strategy or investment product.  Thayer Partners is a Registered Investment Adviser. SEC Registration does not constitute an endorsement of Thayer Partners by the SEC nor does it indicate that Thayer Partners has attained a particular level of skill or ability. The material has been gathered from sources believed to be reliable, however Thayer Partners cannot guarantee the accuracy or completeness of such information, and certain information presented here may have been condensed or summarized from its original source.  Thayer Partners does not provide tax or legal or accounting advice, and nothing contained in these materials should be taken as such.

Latest Posts

Legacy Planning: Passing Down More Than Just Money
Estate Planning Financial Planning Wealth Management

Legacy Planning: Passing Down More Than Just Money

Discover how strategic legacy planning preserves your values, wisdom, and life lessons alongside your financial assets to create lasting impact across generations. The True Meaning of Wealth Transfer When business...

Read More