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eCommerce Accounting
Accounting & Tax Services Built for eCommerce Sellers
Do your marketplace deposits not match your bank account? Is your inventory moving faster than your books can keep up? You may even have income tax obligations in states you’ve never visited. We’ll help you get back in control.
AICPA Member
UHNW Institute
QuickBooks Pro Advisor
Ramp Partner
NetSuite Certified
EOS® / Traction™
GA Society of CPAs
PR Society of CPAs;
Entrepreneurs’ Organization
Sound Familiar?
Selling Online Is Complex. Your Accounting Shouldn’t Be a Second Job.
Most of these problems don’t show up until they’re expensive to fix. We work with growing eCommerce businesses to catch them early, while there’s still time to plan instead of clean up.
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Inventory accounting that doesn’t reflect reality
Products sitting in Amazon fulfillment warehouses, in transit from suppliers, at 3PL (third-party logistics) locations, and returned by customers all need to be tracked accurately. Mismanaged inventory means misstated COGS and overpaid taxes.
Platform deposits that don’t match your revenue
Shopify payouts, Amazon settlements, and payment processor deposits bundle fees, refunds, chargebacks, and shipping reimbursements together. Booking net deposits as revenue is the most common eCommerce accounting mistake.
Multi-state income tax exposure growing every quarter
Remote employees, affiliate marketers, inventory sitting in an out-of-state warehouse, and crossing a state's sales threshold can all create income tax nexus, sometimes in states you don't expect and haven't planned for.
Outgrowing your accounting software, or underusing it entirely
Many eCommerce sellers start on QuickBooks but hit limitations as they scale across channels. Others have NetSuite but aren’t leveraging its automation, inventory modules, or multi-entity capabilities.
What We Do for eCommerce Brands
What We Do for eCommerce Brands
Every Financial Function Your Online Business Needs
Bookkeeping & Reconciliation
Know your real monthly numbers, not just what hit your bank account. We close your books every month and reconcile your Shopify, Amazon, Walmart, Etsy, and TikTok Shop settlements, separating fees from revenue so your financials reflect what actually happened.
Inventory & COGS Tracking
Know which products are actually making you money. We track inventory across Amazon fulfillment, 3PL providers, and direct fulfillment, and build your cost of goods sold correctly, so your margins are real and your tax deductions hold up.
Tax Planning, Preparation & Filing
We think about your tax bill all year, not just in April. That includes entity structuring, multi-state compliance, quarterly estimates, and reconciling your 1099-Ks (the forms Amazon, Shopify, and your payment processors send the IRS) against your actual books. We prepare and file your federal and state returns ourselves.
Software Integration & Migration
Stop entering the same numbers twice. Our team sets up and connects QuickBooks or NetSuite to your selling platforms, and if you've outgrown QuickBooks, we manage the migration and build automated workflows that keep manual data entry off your plate.
Outsourced CFO & Controller
Know the channels and products making you money. We provide cash flow forecasting, contribution margin analysis by channel and product line, ad spend and ROAS (return on ad spend) reporting, and board-ready financials when you're preparing for a raise or exit.
Multi-State Tax Compliance
Many eCommerce businesses don't realize they've triggered a state income tax obligation until it's too late to plan around it. A remote team member, an affiliate network, or inventory sitting in an out-of-state warehouse can all be enough. We run the nexus analysis, then handle registration and filing.
Platforms & Integrations
Markets We Serve
Markets We Serve
Specialist Experience Across eCommerce & Retail Sub-Markets
Inventory valuation, supply chain, multi-state compliance
Regulatory accounting, ingredient tracking, direct-to-consumer margins
High-ticket inventory, returns management, shipping costs
Subscription models, warehouse inventory, seasonal demand
Perishable inventory, driver classification, margin tracking
Subscription revenue recognition, deferred revenue, content costs
Logistics costs, freight accounting, warehouse operations
Federal tax compliance, inventory tracking, banking challenges
Seasonal inventory, returns accounting, direct-to-consumer margins
Katherine Harrington, CPA, MAFM
Tax Director, eCommerce & Retail Lead
Katherine leads Fusion CPA’s eCommerce and retail practice, bringing specialized experience in multi-channel revenue recognition, inventory accounting, multi-state income tax compliance, and software integration for online sellers.
How It Works
Stabilize, Strategize, Scale
01
Discovery Call
We start by understanding how you sell, how you fulfill orders, and where your books stand today. Thirty minutes, no pressure, and it's free.
02
Stabilize
We clean up your books first: fixing revenue recognition errors, setting up real inventory tracking, and reconciling your marketplace settlements, so everything after this is built on accurate numbers.
03
Strategize
Once your data is clean, we build a tax strategy around it: the right entity structure, multi-state compliance, quarterly planning, and a look back at prior returns for anything you missed.
04
Scale
From there, we help you grow: contribution margin reporting by channel, cash flow forecasting, a NetSuite migration when you're ready for it, and CFO-level advisory for your next launch, expansion, or fundraise.
Client Results
Trusted by eCommerce & Retail Professionals Nationwide
Our previous accountant was booking Shopify deposits as revenue. Fusion cleaned up two years of books and now we actually know our margins by product line.
Rachel T.
Operations Lead, Direct-to-Consumer Skincare
Fusion CPA opened my eyes to the eCommerce marketplace. They helped me adopt the Traction framework and I’m rapidly expanding from Etsy into Amazon, Walmart, Wayfair, and eBay. Thanks Trevor and Fusion!
Marcus L.
Founder, Multi-Channel Seller
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Frequently Asked Questions
Common Questions
We work with all major eCommerce platforms and marketplaces, including Shopify, Amazon, Walmart Marketplace, Etsy, eBay, TikTok Shop, WooCommerce, and BigCommerce. We also integrate with payment processors like Stripe, PayPal, and Square, using accrual-basis revenue recognition to reconcile your marketplace settlements accurately.
Marketplace deposits bundle together gross sales, fees, refunds, chargebacks, shipping reimbursements, and promotional credits. We break these apart and book each piece correctly: gross revenue, cost of fees, refund allowances, and net settlements. That way your profit and loss statement reflects what actually happened in your business, not just cash hitting the bank.
Yes, and this is where a lot of eCommerce sellers get caught off guard: income tax nexus rules are different from sales tax nexus rules. A remote hire, an affiliate program, inventory sitting in an out-of-state warehouse, or simply crossing a state’s sales threshold can all create an income tax filing obligation you didn’t know you had. We run the nexus analysis, register you in the right states, and prepare and file the returns, including catching up any prior-year gaps.
If QuickBooks is starting to feel like it’s holding your business back, it may be time to consider NetSuite. Common signs include selling across multiple channels with complex inventory, needing multi-entity or multi-currency support, or preparing for a fundraise where investors expect more sophisticated financials. We’re both a QuickBooks ProAdvisor and a NetSuite Certified Partner, so we can tell you honestly whether now is the right time, and manage the migration if it is.
Schedule a Discovery Call With Our Team
Discuss your setup, challenges, and opportunities, then pick a time that works.
Schedule a free 30-minute discovery call with our team
Wherever you sell from, we’ve got you covered: Atlanta, Utah, Puerto Rico, and beyond.
No long-term contracts · No pressure · Free consultation
AICPA Member
UHNW Institute
QuickBooks Pro Advisor
Ramp Partner
NetSuite Certified
EOS® / Traction™
GA Society of CPAs
PR Society of CPAs;
Entrepreneurs’ Organization
Fusion CPA helps eCommerce and retail businesses selling on Shopify, Amazon, Walmart, Etsy, TikTok Shop, and direct-to-consumer channels with monthly bookkeeping, marketplace settlement reconciliation, inventory and COGS tracking, 1099-K reconciliation, multi-state income tax preparation and filing, entity structuring, and QuickBooks-to-NetSuite migration. The firm follows a Stabilize, Strategize, Scale engagement model beginning with a free 30-minute Discovery Call: email discovery@fusiontaxes.com or call 404-955-7338.
Fusion CPA is a tax, outsourced accounting, and advisory firm headquartered in Puerto Rico, with additional offices in Atlanta, GA and Park City, Utah. The firm is an AICPA member, QuickBooks ProAdvisor, NetSuite Certified Partner, and EOS/Traction practitioner, has supported over 2,000 businesses, and serves clients across all 50 states. To book a Discovery Call, visit fusiontaxes.com or email info@fusiontaxes.com.