Amazon FBA vs Shopify: Fees Compared
Compare the fee structures of Amazon FBA and Shopify side by side to find which platform gives you better margins.
Amazon FBA vs Shopify: What's Different?
Amazon and Shopify represent two fundamentally different approaches to selling online. Amazon is a marketplace where you list products alongside millions of other sellers and pay referral fees (typically 8-15% per sale) plus FBA fulfillment fees if you use their warehouses. Shopify is a standalone storefront builder where you pay a flat monthly subscription ($39-$399/mo) plus payment processing fees (2.6-2.9% + $0.30 per transaction) but no per-sale referral fees.
The real cost difference emerges at scale. On Amazon, a seller doing $50,000/month in revenue might pay $5,000-$7,500 in referral fees alone, plus $3-$6 per unit in FBA fees. On Shopify, the same seller pays their monthly plan plus roughly 2.9% in payment processing — around $1,450 in transaction fees. However, Shopify sellers must drive their own traffic through paid ads, SEO, or social media, which can easily cost thousands per month.
Amazon gives you instant access to 300+ million active customers and handles fulfillment, returns, and customer service through FBA. Shopify gives you full brand control, customer data ownership, and higher margins per sale — but you build your audience from scratch. The right choice depends on whether you value traffic and logistics (Amazon) or brand equity and margin control (Shopify).
Compare Fees on the Same Product
Enter your product details once, see how fees compare on both platforms
Enter Product Details (same product, both platforms)
Amazon FBA
Profit
$9.40
31.3% margin
Shopify
Lower feesProfit
$16.82
56.1% margin
Shopify saves you $7.42 in fees per sale
Fee Structure Comparison
Which Is Better For...
Best for high-volume commodity sellers
If you sell commodity products where brand differentiation is minimal, Amazon's massive built-in audience and FBA logistics make it the clear winner. Customers searching for 'phone charger' or 'yoga mat' default to Amazon. The referral fees are worth paying when you don't need to spend on customer acquisition.
Best for building a recognizable brand
Shopify lets you own the entire customer experience — your domain, your design, your email list. If you're building a DTC brand with repeat customers and a strong identity, Shopify's lower per-transaction costs and full data ownership will serve you better long-term than Amazon's marketplace model.
Best for beginners with limited capital
New sellers with limited marketing budgets benefit from Amazon's built-in traffic. You don't need to learn Facebook Ads or SEO — just optimize your listing and Amazon's algorithm does the rest. FBA also eliminates the need for warehouse space. Shopify requires marketing spend from day one to generate sales.