The 7 Best Paychex Integrations (Time Tracking and More) for 2025

Looking for Paychex integrations for your construction business? We’ve reviewed 7 of the best Paychex integrations to help you!

Office workers in front of screens showing Paychex integrations.
FAQs
What is a Paychex integration?

Paychex integration refers to connecting Paychex Flex with other HR, financial, and productivity tools to streamline data flow and improve efficiency. This integration often involves an export/import process or API connections to share data between systems.

Key aspects of Paychex integration:

  • Data Sharing: Integrations allow for sharing data across platforms, eliminating duplicate data entry and ensuring up-to-date information in all connected systems.
  • Types of Integration:
    • Export/Import: Data is exported from one system (like Buddy Punch) in a Paychex Flex-specific format and then imported into Paychex Flex.
    • API Integration: Direct connections via APIs (application programming interfaces) enable near real-time data sharing between Paychex Flex and other systems.
  • Benefits:
    • Efficiency: Automates business processes, reduces manual errors, and enhances business intelligence.
    • Time Savings: Simplifies administration and eliminates duplicate data entry.
    • Scalability: Provides the flexibility needed as a business grows.
  • Examples of Integrated Systems:
    • HR Systems: ATS (Applicant Tracking Systems), Core HR, HCM (Human Capital Management).
    • ERP Systems: NetSuite.
    • Time and Attendance: Deputy.
    • Recruiting: Greenhouse Recruiting.
  • Implementation
    • Some integrations, like Buddy Punch, require enabling the integration and entering specific Paychex Client ID and Pay Codes.
    • Other integrations may involve creating webhooks and entering API keys.
    • Setting up the integration often involves connecting the relevant accounts and granting access to the integrated application.
What types of apps integrate with Paychex?

Paychex Flex integrates with various types of applications, including HR, financial, and productivity tools. These integrations streamline data flow, improve efficiency, and reduce manual data entry.

Examples of app types that integrate with Paychex:

  • HR Systems: These include ATS (Applicant Tracking Systems), Core HR, and HCM (Human Capital Management). An example is the Greenhouse Recruiting integration, which allows a one-way sync where a new hire in Greenhouse Recruiting initiates the creation of a new worker in Paychex Flex.
  • ERP Systems: For example, NetSuite, which can automatically import payroll data from Paychex Flex in real-time.
  • Accounting Software: Paychex Flex integrates with accounting software packages like QuickBooks Online, Sage, and Xero.
  • Time and Attendance: Deputy and When I Work are examples of time and attendance systems that integrate with Paychex Flex. Hours tracked in When I Work can sync to Paychex Flex.
  • Other: Engagedly can automatically sync user data with Paychex.
What are the best types of apps to integrate with Paychex?

The best types of apps to integrate with Paychex Flex can help streamline HR processes, save time, and reduce errors. Here’s a breakdown:

  • HR Systems: Integrating ATS (Applicant Tracking Systems), Core HR, and HCM (Human Capital Management) systems with Paychex Flex can streamline new hire onboarding and ensure employee data is up-to-date. Flexspring offers connectors for systems like Oracle HCM, SAP SuccessFactors, and Workday. New hire data from an ATS or Core HR system can automatically sync to Paychex Flex.
  • ERP Systems: Integrating ERP systems like NetSuite allows for the automatic import of payroll data from Paychex Flex, which helps in summarizing payroll data for journal entries.
  • Accounting Software: Paychex Flex integrates with accounting software packages like Xero, QuickBooks Online, Sage Intacct, and Sage. QuickBooks Time and Paychex Flex integration allows payroll and job costing information to move automatically and seamlessly between Paychex Flex.
  • Time and Attendance: Apps like Workyard, Buddy Punch, and Time Tracker integrate with Paychex Flex for time tracking, GPS tracking, geofencing, and automatic timesheet features. Time tracked in When I Work can sync to Paychex Flex.

Other: Guru is an AI-powered knowledge platform that integrates with Paychex Flex. Engagedly can also automatically sync user data with Paychex.

Why use a time tracking app that integrates with Paychex?

Using a time tracking app that integrates with Paychex Flex offers several benefits.

Key benefits:

  • Accuracy and Reduced Errors: Automatic data transfer between the time tracking tool and Paychex Flex minimizes manual entry errors, ensuring more accurate payroll processing.
  • Streamlined Processes: Integrated systems reduce the time from clock-in to payroll, making the entire process more efficient.
  • Labor Law Compliance: Accurate recording of work hours, overtime, and breaks helps adhere to labor laws, reducing the risk of legal issues.
  • Audit Trails: Detailed time records and reports aid in audits and ensure transparency.
  • Employee Self-Service: Some integrations allow employees to view time records, submit time-off requests, and check schedules.
  • Time and Cost Savings: Automating time tracking and payroll reduces the need for manual intervention, saving time and operational costs.
  • Improved Security and Minimized Time Theft: Features like biometric time clocks and the Paychex Time Kiosk app can help prevent buddy punching and other inaccuracies often found with manual timecards.
  • Real-time Updates: Provides real-time updates to payroll data, enabling immediate insight into labor costs and employee activity.
  • Flexibility: Offers a variety of employee time tracking methods such as web and mobile apps, the Paychex Time Kiosk app, and biometric time tracking.
  • Geolocation and Geofencing: GPS tracking provides real-time notifications of where employees work, and geofencing allows setting work perimeters where employees can clock in.
  • Seamless Data Flow: Data flows seamlessly between HR, payroll, and time tracking systems, reallocating time previously spent approving timesheets and reconciling expenses.
  • Hands-Free Payroll Exports: Secure time clock system integrations automatically export employee hours into payroll, reducing the risk of data-entry errors.
Seamlessly connect Workyard to Paychex for accurate payroll
See how it works
Integrate your key systems & workflows in minutes