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Paychex Flex vs Square Payroll

Updated February 10, 2026

Paychex Flex vs Square Payroll: Which is best for you?

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Custom shortlist of 3-5 vendors
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1 million+ businesses helped
2 million+ verified software reviews
Starting Price

Pricing available upon request

$6.00

per month

Free Trial
Free Version
Screenshots
and Demo
Product Screenshot
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Product Screenshot
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Top Rated
  Features
Data Security
4.75
Leave Tracking
4.71
Direct Deposit
4.70
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Employee Portal
4.88
Direct Deposit
4.83
Compliance Management
4.75
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Integrations
Xero
Xero
QuickBooks Online
QuickBooks Online
Sage Intacct
Sage Intacct
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Square Point of Sale
Square Point of Sale
Deputy
Deputy
QuickBooks Time
QuickBooks Time
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Pros / Cons
  • The platform also offers employee self-service options, allowing workers to access their pay stubs, tax forms, and personal information easily.
  • Customer service, tax service (many many errors), processing, data integrity, they sold our employee data to a predatory payday loan company.
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  • Staff can also adjust their time cards and send it in as a request if they forget to clock in/out which makes it super simple for me! Plus, they handle my new hire paperwork, quarterly payroll filings and TAXES.
  • Customer service is virtually impossible to reason with, non responsive at times and in the long run, using this service has caused chaos for my company and distress for my employees.
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Ease-of-Use
4.2/ 5
Highest performing feature
in the comparison
4.6/ 5
Value for Money
4/ 5
Highest performing feature
in the comparison
4.6/ 5
Customer Support
3.9/ 5
Highest performing feature
in the comparison
4.4/ 5
Functionality
4.1/ 5
Highest performing feature
in the comparison
4.5/ 5
Support Options
Email/Help Desk
FAQs/Forum
Knowledge Base
Phone Support
24/7 (Live Rep)
Chat
Email/Help Desk
FAQs/Forum
Knowledge Base
Phone Support
24/7 (Live Rep)
Chat
Training Options
In Person
Live Online
Webinars
Documentation
Videos
In Person
Live Online
Webinars
Documentation
Videos
FrontRunners
FrontRunners 2026
FrontRunners 2024
Advisor
  Recommendations
N/A
N/A
Ideal Customer Size
Small
Medium
Large
Small
Medium
Large
Deployment Options
Cloud, SaaS, Web-Based
Desktop - Mac
Desktop - Windows
Desktop - Linux
Desktop - Chromebook
On-Premise - Windows
On-Premise - Linux
Mobile - Android
Mobile - iPhone
Mobile - iPad
Cloud, SaaS, Web-Based
Desktop - Mac
Desktop - Windows
Desktop - Linux
Desktop - Chromebook
On-Premise - Windows
On-Premise - Linux
Mobile - Android
Mobile - iPhone
Mobile - iPad