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Tech Solutions to HR Problems

CheckMark Payroll Software

Payroll Software

CheckMark Payroll Software is simple, affordable desktop payroll software for small businesses and accountants. Manage unlimited employees and payrolls, calculate taxes, pay by check or direct deposit, and prepare payroll reports on Windows or macOS.

Last updated: October 2026

Pricing

Contact us for pricing

Who Uses This Software?

CheckMark Payroll Software is designed for small business owners, accountants, CPAs, bookkeepers, and payroll professionals who want to process payroll in-house, manage employee payments, and handle payroll for one or multiple companies.

About the vendor
Located In Fort Collins, US
Founded In 1984
Customers
  • Small Businesses (SMBs)
Industries
  • Accounting
  • Agriculture
  • Construction
  • Financial Services
  • Human Resources
  • Manufacturing
  • Retail
Deployment
  • Desktop
Platforms
  • Mac
  • Windows
Browsers
Training
  • Documentation
  • Online Tutorials
Support
  • Business Hours
  • Email
  • FAQ
  • Knowledge Base
  • Live Online
  • Phone
Languages Supported
  • English
LinkedIn Page
@Linkedin
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@X
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What is CheckMark Payroll Software?

CheckMark Payroll Software is a simple and affordable desktop software for small businesses, accountants, bookkeepers, CPAs, and payroll professionals who prefer to manage payroll in-house. Available for Windows and macOS, it combines employee management, payment options, tax reporting, and year-end documentation in one application.

The software supports unlimited employees and payrolls, along with multiple company management. This makes it suitable for businesses of different sizes and accounting professionals who handle payroll for multiple clients.

Key features of CheckMark Payroll Software

  • Unlimited employees and payrolls: Manage employee records and run payroll as often as needed.
  • Multiple company management: Maintain separate company payroll information within one application.
  • Direct deposit and check printing: Create ACH files for bank submission or print MICR checks on blank or pre-printed stock.
  • Customizable income and deductions: Set up bonuses, commissions, insurance deductions, 401(k) contributions, and employer matching.
  • Time and attendance support: Import employee hours from time clocks or spreadsheets.
  • Paid time off tracking: Track accrued sick and vacation hours.
  • Payroll tax reporting: Prepare Forms 941, 940, 943, and 944.
  • Year-end forms: Print W-2 and W-3 forms and electronically file W-2 information where supported.
  • Accounting integration: Work with accounting software such as QuickBooks and CheckMark MultiLedger.

Designed for in-house control

CheckMark Payroll Software is intended for businesses and accounting professionals who want to handle payroll themselves rather than outsource the process. Its desktop-based approach gives users direct control over payroll settings, employee records, payment methods, and reporting, while offering the flexibility to manage multiple companies from one solution.

Overview of CheckMark Payroll Software benefits

CheckMark Payroll Software helps small businesses and accountants manage payroll in-house with greater control and less reliance on outsourced services. Its straightforward, affordable approach helps users manage payroll responsibilities while keeping costs predictable.

Key benefits of CheckMark Payroll Software

  • Save time: Simplify routine payroll tasks and keep payroll information organized.
  • Save effort: Manage payroll internally with tools and settings suited to your business needs.
  • Save money: Choose an affordable solution that reduces reliance on external payroll services.
  • Maintain control: Manage payroll on your own schedule and keep direct oversight of your processes.
  • Support growth: Handle unlimited employees and payrolls as your business expands.
  • Manage multiple businesses: Help accountants and bookkeepers organize payroll for different clients.
  • Fit your workflow: Customize payroll settings to match your business practices.
  • Connect with accounting tools: Integrate with QuickBooks and CheckMark MultiLedger.
  • Choose your platform: Use the desktop software on Windows or macOS.
  • Get support: Access US-based customer support and product resources when you need assistance.

A practical payroll solution

CheckMark Payroll Software gives businesses and accounting professionals an affordable way to handle payroll independently. By managing payroll in-house, users can maintain control over their processes, organize their work, and choose an approach that fits their day-to-day operations.

Features

Learn more about CheckMark Payroll Software features that set it apart from the competition. Discover how its unique tools and capabilities enhance your processes.

Accounts & Permissions

Access Control
Approval Process Control
Employee Portal
Permission Management

Compliance

401(k) Tracking
Certified Payroll Reporting
Compliance Management
Electronic Signature Capture
General Ledger
Tax Compliance
W-2/1099 Preparation

Customization

Customizable Branding
Customizable Reporting
Customizable Templates

Data Processing

Audit Trail
Charting
Data Filtering
Data Import/ Export
Data Visualization
Document Management & Storage
Drag & Drop Interface
Forms Management
Multi-Location
Search Functionality
Secure Data Storage
SSL Security

Finance

Accounting Management
Benefits Management
Budgeting
Check Printing
Direct Deposit
Electronic Payments
Multi-Currency
Payroll Integration
Payroll Management
Receiving
Wage Garnishment

Interaction Features & UX

Automatic Notifications
Collaboration Tools
Email Notifications
Reminders
Self Service Portal

Presence & Absence Management

Absence Management
Attendance Management
Attendance Tracking
Sick/ Leave Tracking
Vacation/ Leave Tracking

Real Time Features

Real Time Analytics
Real time Data
Real Time Notifications
Real Time Reporting
Real Time Updates

Reporting Capabilities

360 Degree Feedback
Ad hoc Reporting
Performance Reports
Records Management
Reporting & Statistics
Summary Reports

Talent Management Features

Applicant Tracking
Employee Onboarding
HR Management
Interview Scheduling
Job Application Management
Monitoring
Performance Appraisal
Recruitment Management

Time Management

Automated Scheduling
Calendar Management
Clock In/ Out
Employee Time Tracking
Overtime Calculation
Overtime Tracking
QuickBooks Integration
Time & Expense Tracking
Time Clock
Time Clock Integration
Timesheets

Workflow & Activities

Activity Dashboard
Configurable Workflow
Performance Management
Progress Tracking
Workflow Management
Pricing

Learn more about CheckMark Payroll Software's pricing options, cost, and plans so you can make a well-informed, business-wise decision on the best software to use for organization.

CheckMark Payroll Software Pro

$599 / year

All core payroll features included, plus reliable software and responsive support at a great value. Ideal for users with a good understanding of payroll processing and tax reporting who need dependable tools for managing payroll in-house.

 

  • Self-Service Payroll

  • Automatic Payroll Calculation

  • Unlimited Salaried & Hourly Employees

  • Unlimited Payrolls (Regular, Bonus, Off-Cycle, etc.)

  • Supports Unlimited Companies & Computer Installations

  • All Pay Frequencies

  • Multiple Pay Rates

  • MICR Encoded Check Printing

  • ACH Direct Deposit

  • Printing of Forms 941, 940, 944, & 943

  • Printing & E-Filing of Forms W-2 & W-3

  • Printing & E-Filing of Forms W-2 C & W-3 C

  • Employer Payroll Tax Filings

  • Quarterly SUTA Tax Reports

  • Access to 40+ Types of Payroll Reports

  • Employee Benefits (Health, Retirement, Insurance, etc.)

  • Customized Vacation and Sick Leave Policies

  • Customized Deductions and Garnishments

  • Up to 60 Mins of Support Within the Payroll Year

  • Online Access to Program Fixes

 

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FAQs

Learn more about CheckMark Payroll Software.

Yes. CheckMark is designed for small businesses that want to manage payroll in-house. It supports unlimited employees and payrolls, with tools for employee payments, tax reporting, and payroll records.

Yes. Accountants and bookkeepers can set up multiple companies and manage payroll for different businesses using CheckMark Payroll Software.

Yes. You can import employee hours from a time clock or spreadsheet, helping reduce manual data entry when preparing payroll.

CheckMark supports Forms 941, 940, 943, and 944. You can also print W-2 and W-3 forms and electronically file W-2 information where supported.

Yes. You can create and customize income and deduction categories to suit your payroll needs, including bonuses, commissions, insurance deductions, 401(k) contributions, and employer matching.

Yes. CheckMark supports payroll for hourly and salaried employees. You can enter employee hours, calculate pay, and account for additional income, tax withholdings, and deductions.

Yes. CheckMark supports ACH direct deposit and MICR check printing. You can use both payment methods in the same payroll run and email PDF pay stubs to employees.

Yes. CheckMark Payroll Software is available for Windows and macOS, allowing businesses and accounting professionals to use the desktop platform on either operating system.

Yes. CheckMark offers a 60-day free trial. During the trial, users can add employees, run up to four payrolls, and create paychecks to explore the software.

Both plans include core payroll features. Pro+ adds extended support, priority assistance, toll-free access to payroll experts, and live chat. Pro is suitable for users who need core payroll tools and standard support.