The 16 Best QuickBooks App Integrations in 2026

QuickBooks is a powerful accounting tool on its own, but its true potential is unlocked when you connect it with specialized apps that automate tasks across your business. The right integrations turn your accounting software into a central hub for everything from sales and inventory to payroll and expense management. This guide covers the 16 best QuickBooks app integrations available in 2026 to help you build a more efficient and connected financial workflow.

1. Shopify

Connecting your Shopify store to QuickBooks is a game-changer for any e-commerce business. This integration automates one of the most tedious parts of online retail: bookkeeping. It syncs completed orders, payments, fees, and product details directly into QuickBooks, eliminating the need to manually enter every single sale. It keeps your inventory counts consistent between your storefront and your financial records, giving you a real-time view of your stock levels without having to toggle between systems. This connection ensures your financial data is always accurate and up-to-date, which is a huge time-saver during tax season or when analyzing your sales performance.

• Pros:
  • Automatically syncs individual sales, refunds, taxes, and shipping fees.
  • Maintains accurate inventory levels between your sales channel and accounting books.
  • Drastically reduces manual data entry and potential for human error.
• Cons:
  • Can be complex to configure mappings for gift cards, disputes, or custom discounts.
  • Multi-currency support may require additional settings or a third-party connector.
• Pricing:
  • The base Shopify connector for QuickBooks Online is typically free, though transaction fees from Shopify and your payment processor still apply.

Who it's best for: E-commerce businesses that want to automate their sales-to-bookkeeping process and maintain accurate inventory.

2. Stripe

For businesses that collect payments online, the Stripe integration removes manual reconciliation headaches. When a customer pays an invoice via Stripe, the integration neatly records the payment into your QuickBooks account. This means you don’t have to guess where the small discrepancy in your bank deposit came from—the transaction is already categorized. It ensures your revenue numbers are precise and your books are always clean, saving countless hours during bank reconciliation.

• Pros:
  • Automatic daily syncs of sales and refunds.
  • Simplifies bank reconciliation by matching batched payouts with individual transactions.
  • Provides detailed transaction-level data inside QuickBooks.
• Cons:
  • Synchronization can be delayed by a day or two depending on payout schedules.
  • Handling chargebacks and disputes sometimes requires manual adjustments.
• Pricing:
  • The integration app is free. Standard Stripe transaction pricing applies (e.g., 2.9% + $0.30 per transaction).

Who it's best for: Service-based businesses, SaaS companies, and anyone who processes payments directly through Stripe.

3. Square

If your business operates a physical storefront or takes in-person payments, the Square integration for QuickBooks is essential. It acts as a bridge between your point-of-sale system and your financial records. Daily sales transactions, tips, fees, and taxes from Square are automatically synced to your QuickBooks Online account as a summarized journal entry. This provides a clear, high-level overview of daily performance without cluttering QuickBooks with hundreds of individual small transactions, making bookkeeping for retail and service locations much simpler.

• Pros:
  • Synced daily sales summaries for easy revenue tracking.
  • Can import item-level details, helping with inventory and cost of goods sold.
  • Makes it easy to reconcile Square deposits in your bank account.
• Cons:
  • The standard integration creates a summary, so digging into individual transaction details happens in Square, not QuickBooks.
  • Setup requires careful mapping of categories to ensure data flows correctly.
• Pricing:
  • The app is free to connect. Standard Square processing fees apply to all transactions.

Who it's best for: Restaurants, retailers, salons, and any brick-and-mortar business using Square for point-of-sale.

4. Gusto

Gusto provides a friendly and powerful alternative to QuickBooks' own payroll solution. It manages payroll, tax filings, benefits, and HR compliance with a clean and intuitive interface. When integrated with QuickBooks, Gusto automatically syncs every payroll run—including wages, taxes, and reimbursements—so that your expense accounts are always accurate. It eliminates manual journal entries for payroll and handles federal, state, and local tax filings for you, helping you stay compliant without the administrative burden.

• Pros:
  • Full-service payroll automation, including tax calculations and filings.
  • Includes features like employee onboarding, health benefits, and HR tools.
  • Seamlessly syncs payroll journal entries into the QuickBooks Chart of Accounts.
• Cons:
  • Payroll services are limited to businesses with U.S.-based employees.
  • Pricing is per-employee, which can become costly for larger teams.
• Pricing:
  • Plans start around $40 per month plus $6 per employee. Higher tiers add more HR features.

Who it's best for: Small and medium-sized U.S. businesses looking for an easy-to-use, all-in-one payroll and HR platform.

5. TSheets (now QuickBooks Time)

Now fully integrated as QuickBooks Time, this application is the top choice for accurate time tracking and job costing. Employees can clock in and out from a computer, mobile app, or even a physical kiosk, with options for geofencing to ensure they’re on-site. The tracked time syncs directly to QuickBooks for payroll preparation, invoicing, and project profitability analysis. For contractors, law firms, or any business that bills by the hour, QuickBooks Time makes it incredibly easy to assign every minute worked to a specific project and customer, ensuring accurate billing and payroll runs.

• Pros:
  • Deep, native integration with QuickBooks for payroll and invoicing.
  • Mobile app with GPS and geofencing capabilities.
  • Detailed time reports for monitoring project budgets and labor costs.
• Cons:
  • The user-based pricing can add up quickly for large teams.
  • Advanced reporting and project-management features require the pricier Elite plan.
• Pricing:
  • Starts at a base fee plus around $8 per user per month.

Who it's best for: Service-based businesses, construction companies, and freelancers who need precise time tracking for billing and job costing.

6. Expensify

Expensify automates the entire expense reporting process, from receipt capture to reimbursement. Employees snap a photo of a receipt, and Expensify's SmartScan technology automatically transcribes the merchant, date, and amount. From there, reports are built, submitted for approval according to custom rules, and then synced directly to QuickBooks as categorized expenses. It practically eliminates manual data entry, paper receipts, and the lengthy process of approving expense reports, making it a favorite for teams with travel or out-of-pocket business expenses.

• Pros:
  • Excellent OCR technology for automatic receipt scanning.
  • Automated approval workflows based on company policies.
  • Direct integration for corporate card reconciliation.
• Cons:
  • The user interface can feel a bit dated compared to newer competitors.
  • Custom rules and policy controls are limited on the most basic plans.
• Pricing:
  • Offers a limited free plan; paid plans start at $5 per active user per month.

Who it's best for: Companies whose employees need to submit expense reports for reimbursement or corporate card reconciliation.

7. HubSpot CRM

Connecting HubSpot to QuickBooks gives you a complete picture of your customers, from initial lead to final payment. This integration lets your sales team see customer invoice statuses and payment history directly within HubSpot, while your finance team can create invoices in QuickBooks Online based on deals closed in the CRM. This alignment prevents miscommunications, ensures faster billing cycles, and provides a single source of truth for all customer financial data, bridging the common gap between sales and finance departments.

• Pros:
  • Provides a 360-degree view of customer data across teams.
  • Automate invoice creation directly from a closed deal in HubSpot.
  • Sales reps get financial context without needing access to QuickBooks.
• Cons:
  • The deepest integration features require a paid HubSpot plan (Sales Hub Professional).
  • Initial setup for data mapping between the two systems can be intricate.
• Pricing:
  • HubSpot offers a free CRM; the QuickBooks integration features are part of their premium Operations Hub and Sales Hub plans.

Who it's best for: Sales-driven businesses that want to sync customer data and invoicing workflows between their CRM and accounting system.

8. ADP

For growing businesses that need a more comprehensive HR and payroll solution, ADP is a leading choice. Their integration with QuickBooks ensures that complex payroll journal entries, including detailed breakdowns of wages, taxes, and deductions across different departments or locations, are accurately synced. ADP is built for scale, offering services like risk and compliance management, retirement plans, and HR outsourcing that go far beyond what simpler payroll tools offer. It's a reliable option for companies navigating the challenges of a larger, more distributed workforce.

• Pros:
  • Highly scalable payroll processing suitable for large organizations.
  • Handles complex compliance issues, multi-state payroll, and local tax laws.
  • Comprehensive offerings including benefits administration and HR support.
• Cons:
  • Significantly more expensive than other small business payroll platforms.
  • Can be overly complex for small businesses with straightforward payroll needs.
• Pricing:
  • Pricing is quote-based and tailored to the size and specific needs of the business.

Who it's best for: Mid-sized to large businesses needing an enterprise-grade payroll and HR system with strong compliance support.

9. QuickBooks Commerce

Previously known as TradeGecko, QuickBooks Commerce is an inventory and order management powerhouse designed for multi-channel retailers. It centralizes your inventory across e-commerce platforms like Shopify, Amazon, and WooCommerce, as well as B2B wholesale channels. The integration ensures that when a sale happens anywhere, stock levels are updated everywhere and the financial data flows correctly into QuickBooks Online. It prevents stockouts, automates purchase orders, and provides a clear picture of profitability per channel.

• Pros:
  • Manages multi-channel inventory from one central dashboard.
  • Includes B2B wholesale management features.
  • Automates purchase ordering and demand forecasting.
• Cons:
  • Has a steeper learning curve than the native QuickBooks inventory module.
  • Core features are more robust in higher-priced tiers.
• Pricing:
  • Plans begin around $39 per month, scaling up with order volume and features.

Who it's best for: E-commerce and wholesale businesses that sell across multiple channels and need centralized inventory control.

10. Trello

While not a traditional accounting integration, connecting Trello to QuickBooks through an automation tool like Zapier creates powerful workflows for project-based teams. You can set up triggers so when a Trello card is moved to a "Ready for Invoice" list, a draft invoice is automatically created in QuickBooks. This kind of integration connects your team's day-to-day project management with financial tasks, helping to avoid finished work falling through the cracks and ensures you bill for everything you complete.

• Pros:
  • Simple, visual way to track project progress.
  • Highly flexible and can be adapted to almost any workflow.
  • Connects operational tasks to financial outcomes via automation tools.
• Cons:
  • Requires an intermediary tool like Zapier to connect with QuickBooks (no direct integration).
  • Not designed for deep financial tracking within Trello itself.
• Pricing:
  • Trello has a functional free tier; paid plans with more features start at $5 per user per month.

Who it's best for: Teams that want a simple and visual way to trigger billing and financial tasks from their project management boards.

11. Avalara

Calculating sales tax manually is a significant source of risk and effort for businesses selling across different states and tax jurisdictions. Avalara automates this process entirely. It calculates the precise sales tax rate in real-time at the point of sale based on location, product type, and up-to-date tax laws. After collecting the tax, it handles remittances and filings for you. This integration is vital for companies navigating the complex world of sales tax nexus, reducing audit risk and the administrative burden of compliance.

• Pros:
  • Provides rooftop-accurate sales tax calculations for thousands of jurisdictions.
  • Automates sales tax returns and remittance.
  • Reduces audit risk by ensuring compliance with ever-changing tax laws.
• Cons:
  • Can be too expensive for very small businesses with a limited sales footprint.
  • Implementation requires careful configuration of your product tax codes.
• Pricing:
  • Quote-based, determined by transaction volume and geographical complexity.

Who it's best for: E-commerce or B2B businesses operating in multiple states that need to automate sales tax compliance.

12. Fathom

Fathom transforms your QuickBooks data into beautiful, actionable business intelligence dashboards and management reports. It goes far beyond the standard reports in QuickBooks, allowing you to track custom KPIs, analyze profitability trends, and compare your company’s performance against industry benchmarks. Fathom is perfect for producing professional board reports, conducting in-depth financial analysis with your advisor, or simply gaining a clearer understanding of the key drivers of your business’s financial health.

• Pros:
  • Creates visually engaging and insightful management reports and dashboards.
  • Offers advanced KPI analysis and performance benchmarking.
  • Consolidates data from multiple QuickBooks entities for a group overview.
• Cons:
  • Requires some financial knowledge to build custom reports and interpret the data correctly.
  • Can be overkill for businesses that only need basic financial statements.
• Pricing:
  • Plans start from approximately $39 per month per company file.

Who it's best for: Business owners, CFOs, and financial advisors who want to perform deep financial analysis and create strategic reports.

13. Bill.com

Bill.com (branded for QuickBooks as BillPay) digitizes and automates your accounts payable and accounts receivable processes. For AP, you can receive invoices electronically, route them for digital approval, and pay them via ACH or check directly from the platform. For AR, it can automate invoice reminders and make it easier for customers to pay you online. The platform creates a clean digital audit trail and syncs every transaction—bills, payments, and invoices—with QuickBooks to keep your books updated and accurate.

• Pros:
  • Automates AP/AR workflows from invoice to payment.
  • Provides a clear, digital audit trail for all transactions.
  • Reduces time spent on manual data entry and check processing.
• Cons:
  • Monthly and per-transaction fees can make it costly for companies with high transaction volumes.
  • The initial setup and sync process can be time-consuming.
• Pricing:
  • Starts at $45 per user per month.

Who it's best for: Small and mid-sized businesses looking to eliminate paper and automate approvals for accounts payable and receivable.

14. Toggl Track

For consultants, agencies, and freelancers, Toggl Track is one of the simplest and most effective tools for tracking billable hours. Its user-friendly interface makes it easy to start and stop timers for different projects and clients with a single click. The QuickBooks integration then allows you to pull that tracked time directly onto an invoice for seamless, transparent billing. The system is less complex than QuickBooks Time, making it an excellent choice for individuals and small teams focused purely on capturing hours for invoicing.

• Pros:
  • Extremely simple and fast user interface for tracking time.
  • Available via browser extension, desktop, and mobile apps.
  • Direct integration sends billable hours to QuickBooks for invoicing.
• Cons:
  • Lacks the deep project management and job costing features of more advanced tools.
  • Free plan is limited to five users.
• Pricing:
  • A generous and functional free version is available for individuals; paid plans start at $10 per user per month.

Who it's best for: Freelancers, consultants, and small teams who need a straightforward way to track time and create accurate invoices.

15. Dext (formerly Receipt Bank)

Dext is an indispensable tool for automating the initial stage of bookkeeping: data entry. Similar to Expensify but often favored by accountants, Dext lets you submit receipts, bills, and invoices via a mobile app, email, or direct upload. Its powerful optical character recognition (OCR) technology extracts the key data and pushes it to QuickBooks Online as a categorized transaction with the source document attached. This ends the need to manually key in data from piles of paper, improves accuracy, and ensures a clean digital record for every expense.

• Pros:
  • High-accuracy data extraction from receipts and invoices.
  • Automatically pulls bills from hundreds of online supplier portals.
  • Keeps a digital archive of all source documents.
• Cons:
  • Pricing is based on the number of documents processed, which can be unpredictable.
  • Requires a consistent habit of capturing documents to be effective.
• Pricing:
  • Plans are typically volume-based and start around $10-20 per month for a set number of scans.

Who it's best for: Businesses and accounting firms that want to automate data entry for bills and receipts.

16. Zoho CRM

For companies already using Zoho's suite of business applications, its CRM integration for QuickBooks is a must. Like the HubSpot connection, it synchronizes customer data between your sales and finance teams. You can view QuickBooks customer financial information directly within Zoho CRM, create invoices based on CRM records, and reduce duplicate data entry. It is a powerful and often more affordable alternative to other enterprise CRM solutions, especially for businesses that can benefit from its wider ecosystem of marketing, HR, and project management tools.

• Pros:
  • Deep integration with the broader suite of Zoho One applications.
  • Provides comprehensive CRM functionality at a competitive price.
  • Two-way sync keeps customer data consistent across both systems.
• Cons:
  • The sheer number of features and customization options can be overwhelming to set up.
  • Like other CRMs, the free version of the QuickBooks sync can be limited.
• Pricing:
  • Zoho CRM has a free tier; paid plans with more features start from $14 per user per month.

Who it's best for: Growing businesses, particularly those already invested in the Zoho ecosystem, needing to align sales and accounting.

Final Thoughts

Selecting the right applications to integrate with your QuickBooks account is about building a financial technology stack that supports your specific business model. By automating key processes like sales data entry, expense tracking, payroll, and compliance, you save immense amounts of time and create a single source of truth for your company's finances.

As your operations grow—perhaps expanding sales into new states or adding more complex payroll—new compliance questions often follow. For tax professionals helping clients navigate these challenges, getting quick and accurate answers is key. Our platform, Feather AI, provides an AI tax research assistant to deliver instant, citation-backed answers from authoritative IRS and state sources, so you can confidently advise on complex issues without hours of manual research.