QuickBooks Alternatives for Ecommerce (2026)

Nummbas Books is our top QuickBooks alternative for online stores. It records invoices and bills, splits each payout into sales, fees, refunds and tax, matches it to your bank deposit and, on Growth and Scale, keeps inventory costing in the same app. Its price does not rise with your order volume.

QuickBooks Online is general business accounting software. An online store usually needs more around it: a higher plan for inventory, a connector for payouts and a separate app to understand product and ad performance. This guide compares the alternatives on the work a store does every month.

Our picks at a glance

• Best for online stores that want accounting, payouts and stock in one product: Nummbas Books, included in every Nummbas plan from $99 a month.
• Best if your accountant prefers Xero: Xero Growing or Established with a payout connector.
• Best low-cost general accounting app: Zoho Books, with inventory tracking from the Professional plan.
• Best free option for a very small store: Wave, which covers invoicing and bookkeeping but not inventory tracking.
• Best for service businesses that bill clients: FreshBooks, built around client invoicing.

Why online stores look for a QuickBooks alternative

Inventory tracking starts on Plus

QuickBooks Online costs $38 a month on Simple Start, $85 on Essentials, $140 on Plus and $340 on Advanced. Inventory tracking starts on Plus, so a store that holds stock usually pays at least $140 a month before adding anything else.

Payouts need extra work

A payout combines many sales, minus fees and refunds, into one deposit. Intuit's own guidance says that for third-party sales you record the final payout deposit and fees yourself. Intuit's Shopify connector records each order as a sales receipt and each payout as a deposit for the net amount, which you then match to the bank. Many stores add a connector such as A2X or Link My Books to post one summary per payout instead.

The accounting stops at the ledger

1. Nummbas Books: accounting built for online stores

Payout matching is built in

Nummbas Books splits Shopify Payments, Stripe, Square, eBay, Amazon and TikTok Shop (US) payouts into sales, fees, refunds and tax and links each one to the bank deposit. Transfers between your own accounts are paired, so they do not appear as income or expenses. There is no separate payout connector to pay for or maintain.

Bookkeeping with Nummbas-FO or your accountant

Connect your bank or upload statements. Nummbas-FO records routine transactions within the limits you set, suggests an account for the rest and prepares month end for your review. Invite your accountant with the Accountant role and they can record transactions, reconcile accounts and close months in the same books.

Invoices, bills, receipts and sales tax

Send invoices that customers can pay online through Stripe or Square, straight to your own account. Record supplier bills and upload receipts, email them in or send them from your phone. Nummbas Books prepares sales tax returns for the US, Canada, the UK, the EU, Australia and New Zealand, with a filing pack for each return.

Stock costs that follow your purchases

On Growth and Scale, purchase orders, deliveries and inventory costing sit next to your accounting. Freight and duty are added to the cost of stock as it arrives, and cost of goods sold follows first in, first out as units sell.

Reports that connect to the next decision

Profit and loss, profit by channel, balance sheet, cash flow, trial balance and general ledger reports sit alongside product margins, ad performance and, on Growth and Scale, a six-month bank balance projection. You can see what changed and decide what to order or spend next in the same place.

2. Xero

3. Zoho Books

4. Wave

5. FreshBooks

QuickBooks alternatives compared

What to check before you switch

• Payouts: does the software split each payout into sales, fees, refunds and tax, or do you need another app for that?
• Stock: which plan includes inventory, and can you add freight and duty to the cost of stock?
• Sales tax: can it prepare the returns you file, in the countries you sell to?
• Your accountant: can they work in the same books with the access they need?
• History: what can you bring with you, and how far back?

Move from QuickBooks to Nummbas Books

Import account balances, unpaid invoices and bills, customers and suppliers from QuickBooks Online, along with up to ten years of monthly totals so you can compare past months. You can also import from Xero, Wave, Zoho Books, MYOB, Sage 50 or a spreadsheet.

QuickBooks alternatives FAQs

What is the best QuickBooks alternative for an online store?

Nummbas Books is our top pick. It combines bookkeeping, payout matching, sales tax returns and inventory costing in one product, alongside product and ad performance, and its price does not rise with your order volume.

Is there a free QuickBooks alternative?

Wave has a free Starter plan, and Zoho Books is free while revenue is $50,000 a year or less. Neither free plan includes inventory tracking. Nummbas Books includes payout matching and sales tax returns in every plan from $99 a month.

Can I keep QuickBooks while I try Nummbas?

Yes. Nummbas can send each Shopify Payments, Stripe, Square, eBay or Amazon payout to QuickBooks Online as a summary, with each part going to the account you choose. Nothing is sent until you turn sending on.

Will I lose my QuickBooks history if I switch?

No. Import account balances, unpaid invoices and bills, customers and suppliers, plus up to ten years of monthly totals from QuickBooks Online into Nummbas Books.

Can my accountant work in Nummbas Books?

Yes. Invite your accountant with the Accountant role. They can record transactions, reconcile accounts and close months without access to your dashboards, team or billing.