The 10 Best Quickbooks Apps for Shopify
The top 10 apps merchants see when they search the Shopify App Store for quickbooks, in the exact order the store ranks them. Only Shopify's organic ranking is shown, never sponsored ads.
Updated September 8, 2026 · Organic rankingThe problem this category solves is the shape of a payout. What arrives in the bank is one net figure with everything already folded into it: processing fees, refunds, chargebacks and their fees, reserves, currency conversion and a list of adjustments Shopify names individually in its own documentation. Your sales for that period are a different number, and no amount of staring at the deposit will separate them.
Shopify is unusually direct about the gap. Its payouts activity report carries a warning that it "isn't a statement of revenue for accounting purposes" because revenue in the finance reports is based on orders and sales activity and may use different timing or totals, and the report itself runs a few days behind. So the two views a merchant already has, orders on one side and money on the other, are documented as not reconciling by design. Bridging them is what these apps do.
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1
QuickBooks Online
Sync your retail and B2B sales activity to QuickBooks
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2
QuickBooks Sync by MyWorks
Automatically sync sales, inventory, POs, more with QuickBooks
Built for Shopify -
3
A2X Sync for QuickBooks & Xero
Automated, accurate accounting in QuickBooks Online or Xero
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4
Webgility ‑ QuickBooks Online
Sync Quickbooks Online, Xero & Automate Accounting & Inventory
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5
QuickBooks Bridge by Parex
Sync Individual sales OR Summary journal to QuickBooks Online
Built for Shopify -
6
Webgility x QuickBooks Desktop
Automate accounting, inventory and payout reconciliation
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7
QuickSync‑QuickBooks Connector
Seamlessly syncs sales, updates QuickBooks instantly
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8
MyWorks QuickBooksDesktop Sync
Automatically sync sales and inventory with QuickBooks Desktop
Built for Shopify -
9
Xero & QuickBooks Smart Sync
Sync Sales, Payouts, Fees & Inventory to Xero and QuickBooks
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10
Synder for QuickBooks & Xero
Effortless sales reconciliation with QuickBooks and Xero
Built for ShopifyCompare the top 3 head-to-head
What to look for in a Quickbooks app
- Per order, or a daily summary
- This is the first fork and it changes everything downstream. A journal entry per day keeps the ledger small and readable and is what most accountants ask for. An entry per order gives you customer-level detail in the books and a general ledger that grows fast. Some listings let you choose, and the ones that do not have chosen for you.
- Whether the payout is un-netted
- The test of a sync is whether the bank deposit lands as a single line to be guessed at, or arrives split into sales, fees, refunds and adjustments that reconcile against the statement without manual work. Ask to see a real example of one payout in the ledger.
- How far back it will go
- Switching mid-year means somebody has to import history. Backfill depth is usually priced, sometimes limited, and always worth settling before you start rather than after the first month closes.
- Tax that matches what you actually collected
- Shopify is explicit that filing and remitting remain yours: it is your responsibility to verify rates and to file correctly. So the useful feature is not a tax report but per-transaction mapping to the tax codes your accounting system uses, especially if you sell across borders.
- Currencies, and where they stop being currencies
- Selling in several currencies does not mean receiving several. On the lower plans every payout is converted to your domestic currency, and only the higher plans let you hold a bank account per currency, with conversion still applied to the rest. Your books have to reflect whichever of those is true for you.
Frequently asked questions
Which is the best Quickbooks app for Shopify?
Based on the Shopify App Store's own organic ranking for "quickbooks", QuickBooks Online currently holds the #1 spot, with a 4.7 star rating across 3,303 reviews. The best choice for your store still depends on your requirements, so compare the top results above.
How is this ranking determined?
We record the organic results merchants actually see when searching the Shopify App Store for "quickbooks", refreshed daily. Shopify's own sponsored ("Ad") results are excluded, so positions reflect its real search ranking rather than paid promotion. Source: the Shopify App Store search results for "quickbooks", you can verify the current ranking there yourself.
Which Quickbooks apps are Built for Shopify?
3 of the top 10 quickbooks apps hold the Built for Shopify badge: QuickBooks Sync by MyWorks, QuickBooks Bridge by Parex, MyWorks QuickBooksDesktop Sync.
What does the Built for Shopify badge mean?
Built for Shopify
Built for Shopify is the highest level of recognition Shopify awards an app. To earn
the badge, an app must meet Shopify's standards for safety, performance, ease of use,
and proven usefulness: it cannot slow down the admin, storefront, or checkout, must
integrate seamlessly into the Shopify admin, and must demonstrate quality through
installs, reviews, and ratings over time. When comparing similar apps, preferring
ones with the badge is a safe default.
Learn more about the Built for Shopify badge →
As of September 8, 2026, the top-ranked quickbooks app on the Shopify App Store is QuickBooks Online, with a 4.7 star rating across 3,303 reviews. 3 of the top 10 carry the Built for Shopify badge, and the average rating is 4.8 stars across 5,588 reviews.
Related keyword rankings
Rank higher on the Shopify App Store
Rankbase helps Shopify app developers track keyword positions, analyze install click data, and optimize app listings to rank higher in the Shopify App Store.
Explore Rankbase →Built by Craftshift
Rankbase is made by Craftshift, a Shopify Partner building apps for product images, variants, and bulk catalog work. We built Rankbase to track the App Store rankings of our own apps first, then opened it to other developers, and this directory grew out of that work. The rankings on these pages are Shopify's own organic search results; we never edit them, including for our own apps.
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