Best Online Payroll Services


Historically, payroll has been one of the most complex elements of running a business. Business owners need to make sure that everyone is paid with 100% accuracy, including calculations related to taxes, benefits, and more.

How hard can it be? Well, about one-third of small businesses are fined by the IRS each year because of payroll mistakes.

But modern payroll solutions are changing. The days of faxing wage information to a payroll company and then manually passing out live checks to your employees are fading away.

Everyone wants direct deposit. More businesses are working with remote staff, freelancers, and independent contractors.

That’s why so many companies are switching to online payroll services.

The Value of a Payroll Company

The main value of an online payroll company is simplifying your payroll process. Whether it’s for new hires, contractors, or just weekly payments for full-time employees, online payroll makes things easier.

With online payroll software, you don’t need to hire someone to manage payroll for you. The software takes care of everything, from tax filings to withholding deductions and more.

Another top benefit of online payroll is flexibility. Some companies offer on-demand payments, so your staff isn’t tied to specified pay cycles.

You’ll also have access to your entire payroll system from anywhere.

The 6 Best Online Payroll Services

If you run a quick search for online payroll software, you’ll be overwhelmed with the dozens, if not hundreds of options on the market. But most of these are pretty easy to eliminate.

When it comes to something as important as payroll, you don’t want to take any chances with an inferior service. Depending on the size of your business, there only six online payroll services that I would recommend.

I’ve reviewed all six of these in greater detail below. I’ll cover the essential features, pricing, pros, and cons of each to help you find the best one for your business.


Gusto is a relatively new company. It launched back in 2012 as ZenPayroll and changed its name in 2015. Since that time, Gusto has grown fairly quickly and now serves more than 100,000 businesses across the country.

The reason why so many companies are choosing Gusto for payroll is because of the platform’s simplicity. It’s easy for anyone to set up, manage, and pay workers.

With Gusto, you can run payroll in minutes. You can even run it on autopilot, assuming things aren’t changing each pay cycle.

Not only does Gusto calculate your taxes, but it files everything for you. Local, state, and federal taxes are automatically paid to the right government office each time you run payroll. This benefit is 100% free, while competitors charge extra for it.

One of my favorite parts of Gusto is the onboarding process for each employee. Whether you have a new W-2 hire or 1099 contractor, they can onboard themselves.

Your staff will have easy access to pay stubs, W-2s, and everything else they need online. Even former employees will still be able to view old payroll information.

Gusto offers unlimited payroll cycles, meaning you can issue payments whenever you want. You’re not locked into weekly or bi-weekly cycles.

Gusto helps you with compliance, time-tracking, PTO, employee benefits, and more, in addition to being a full-service online payroll company. Pricing for Gusto is as follows:

Core — $39 per month

  • $6 per month per person
  • Employee self-service
  • Health benefits administration
  • Workers’ comp administration
  • PTO policies

Complete — $39 per month

  • $12 per month per person
  • All Core features
  • Employee offers and onboarding
  • Time tracking
  • Time-off requests
  • Employee directory and surveys

Concierge — $149 per month

  • $12 per month per person
  • All Complete features
  • Certified HR professionals
  • HR resource center

The Core plan is perfect for small teams with basic payroll. As your team scales, you may want to upgrade to the Complete package. Gusto Concierge is designed for larger businesses as a full-service HR resource.

Workers’ comp and health benefits are free to integrate with Gusto. They don’t charge any administrative fees, so you’ll only pay for the premiums.

401k plans, 529 college savings plans, HSAs, FSAs, and commuter benefits come with additional monthly base rates, as well as extra charges for each participating employee.

Gusto has everything you need in an online payroll service. We use it here at Quick Sprout, and I think it’s exceptional. The only potential drawback is the price. It used to be one of the cheapest payroll options on the market, which is no longer the case.

You can try Gusto free for one month. There is no charge for setting up an account, and you’ll only pay after you run your first payroll.

QuickBooks Payroll


QuickBooks is best known for its small business accounting solutions. But the company also has an outstanding online payroll service that ranks high on our list.

QuickBooks Payroll is definitely something you should consider if you’re already using the company for bookkeeping software. You can easily add QuickBooks Payroll to your existing QuickBooks accounting plan.

The result will be a seamless all-in-one solution for your accounting, payroll, and HR needs.

All local, state, and federal taxes will be calculated and paid, automatically, each pay cycle. You can also run Auto Payroll after the initial set up to minimize the time spent running payroll each week.

One of my favorite parts about QuickBooks Payroll is that the company stands behind their product. They are so confident that their calculations will be accurate, that they’ll pay penalty fees incurred from filing errors.

As you would probably expect, the biggest benefit of using QuickBooks Payroll is its integration with QuickBooks accounting software.

Your bookkeeping records and reports will be updated in real-time with each pay cycle. This also makes it easier for you to share payroll information with your accountant.

More than 1.4 million businesses use QuickBooks for payroll, so you know it’s a company and solution that you can trust.

Here’s a brief overview of the plans and pricing for QuickBooks Payroll:

Core — $45 per month

  • $4 per month per employee
  • Full-service payroll
  • Auto payroll available
  • Health benefits
  • Expert support
  • Next-day direct deposit

Premium — $75 per month

  • $8 per month per employee
  • All Core features
  • Same-day direct deposit
  • User permissions
  • HR support center
  • Premium time tracking with mobile app

Elite — $125 per month

  • $10 per month per employee
  • All Premium features
  • Elite onboarding
  • Elite time tracking with project planning and geofencing
  • Tax penalty guarantee
  • Personal HR advisor

Overall, QuickBooks Payroll is as solid as it gets. They offer exceptional customer support for such a large company. If you have any problems, questions, or need assistance, it’s easy to get things resolved.

QuickBooks Payroll falls a bit short in terms of employee benefits and HR guidance with all plans. But it’s still a top choice to consider, especially if you’re already using QuickBooks Online for your accounting needs.



Paychex has been in the payroll business for nearly 50 years. They currently service the payroll needs of about 650,000 companies.

Over the years, Paychex has evolved to adapt with the growing trends in the payroll industry. That’s what makes them such an appealing option for online payroll services.

While Paychex offers solutions for small business owners, I’d recommend this company to larger organizations seeking new payroll options.

The reason why Paychex is better for large corporations is because of its flexibility. Paychex offers solutions that go far and beyond basic payroll processing. They also provide HR administration, employee onboarding, and background checks for new hires.

Depending on the plan you choose, employees can be paid via direct deposit, paper checks, or prepaid debit cards.

Paychex Go is the plan designed for small businesses. It starts at $59 per month plus $4 per employee. It’s easy to sign up and get started online by creating a free account. But overall the plan is pretty limited, and I’d look for other options as a small business owner.

Paychex Flex is the complete payroll and HR solution designed for larger companies. Pricing is customized based on your needs. Added benefits of Paychex Flex include:

  • Free mobile app
  • General ledger service
  • Custom reports
  • $1,000 in prepaid digital marketing services
  • 24/7 phone and live chat support
  • Dedicated payroll specialist
  • Automatically deduct and remit garnished wages

The Flex plan also comes with employee services like extra payment options, onboarding essentials, HR administration, employee screening, and a financial wellness program.

I’d say the biggest downside of Paychex is that the sign up process isn’t as simple compared to some of the other options on our list. You’ll need to contact their sales team to request a quote, so it’s not something that you can do on your own without any assistance.



OnPay was founded in 2007. The company scaled quickly over the years and now processes more than $50 billion in payroll each year.

I like OnPay because it’s a simplified payroll process. There is just one plan to choose from, and it comes with everything you need all-inclusive. That’s why OnPay is my top recommendation for small business owners.

The all-in-one payroll service has straightforward and transparent pricing. It’s $36 per month plus $4 per employee.

This is a great value compared to some of the other options on our list, especially considering all of the features and benefits that you’ll get.

  • Unlimited monthly pay cycles
  • Automated tax filings and payments
  • Supports W-2 and 1099 workers
  • 2-day turnaround
  • Pay via direct deposit, live check, or debit card
  • Garnishments
  • Flexible pay rates and schedules
  • Unemployment insurance withholding
  • 40+ reports
  • Time-tracking integrations

OnPay also has specialized payroll solutions for businesses in specific industries with unique needs. Examples include restaurants, farming, nonprofits, and churches.

Another top benefit of OnPay is the employee self-service functions. Your staff can onboard themselves, access their accounts even after leaving the company, and change their personal information at any time. Employees can also manage voluntary deductions like their 401k plans directly online.

OnPay integrates with other software that you might be using to run your business, like QuickBooks, Xero, or TSheets.

Overall, OnPay is about as simple as it gets. You’ll get everything you need to run payroll for your small business, including HR benefits. It’s easy to add on things like employee health and dental, workers’ comp, and retirement plans.

Your first month using OnPay is free. They’ll also cover any migration costs from your old payroll provider.

The only major drawback of OnPay is that there they don’t have a mobile app. While the site is optimized for mobile devices, apps seem to be pretty standard in today’s day and age.

OnPay will charge you extra for any year-end forms that are mailed to your office or employees. But you could always print them out yourself to avoid those costs.



SurePayroll has been around for about 20 years. In 2011, the company was acquired by Paychex. But it’s still run and sold as a separate payroll service, and it’s different from the Paychex plans that we reviewed earlier in this guide.

This payroll service is more equipped to meet the needs of small business owners, compared to its Paychex parent company.

All you need to do is enter the hours or salary for each employee, review the tax deductions, and approve the payroll to start processing. This is extremely easy for any small business owner to do online.

Run unlimited payrolls each month for no additional charge. You also have the option to run one-day and same-day payrolls.

If your business runs the same payroll each cycle, you can use Auto Payroll as a hands-off service.

SurePayroll helps you manage 401ks, HSAs, FSAs, commuter benefits, and garnishment deductions as well. They also have exceptional customer support via phone, email, and live chat. However, this is limited to six days per week during normal business hours.

In addition to small business owners, SurePayroll carves out a unique niche. They offer specific payroll solutions for nannys, caregivers, and other household employees.

This service helps homeowners avoid IRS fines and ensures compliance.

Like Paychex, you’ll need to request a quote from the sales team to learn more about your specific pricing options. So getting started isn’t necessarily a breeze. SurePayroll does offer two months free, which is one of the best promotions that I’ve seen in my research.

Square Payroll

square payroll

Square is best known for its POS software and credit card processing services. But Square Payroll is an excellent all-in-one payroll solution for any business.

The biggest draw of using Square Payroll is its compatibility with other Square solutions. So if you’re using Square POS, you can sync those timecards with your payroll system.

This is one of the best ways to digitally track employee hours without having to manually enter information for each pay cycle. Square will also help you calculate and split any employee credit card tips.

Another top benefit of Square Payroll is the setup. You can get up and running in just a few quick steps, all done online. Simply input your company info, add your workers’ information, and run your payroll.

Alternatively, you can invite your employees to enter their own information for self-service onboarding. Square Payroll has a great mobile app for managing payroll from anywhere.

Pricing for Square Payroll is affordable and straightforward. It costs $29 per month plus $5 per person paid.

Furthermore, Square Payroll offers a unique option for businesses paying contractors. It’s just $5 per contractor per month, with no base subscription fee. This is one of the most affordable pricing plans you’ll find.

Overall, Square Payroll is perfect for businesses already using the Square POS system. It’s got everything you need to process payroll.

With all of that said, I wouldn’t recommend it to larger businesses in need of more HR resources. Square Payroll is pretty limited in that sense.

How to Find the Best Online Payroll Services

There are lots of different factors that need to be taken into consideration when you’re evaluating an online payroll service. This is the methodology that we used during our research to create this guide.

Business Size

Large and small business have different needs; payroll is no exception. A business with just five employees won’t be using the same payroll system as a company with 50 or 500 employees.

Recognize which payroll solutions are the best for your business size. If you’re planning on growing and hiring new people in the coming months or years, make sure you choose an online payroll solution that can scale with you.

Types of Employees

Who are you paying?

Most payroll services will accommodate businesses with full-time W-2 employees. However, there are better options if you have part-time staff or issue payments to independent contractors.


Your online payroll solution is supposed to make your life easier. So I always recommend systems with automated options.

If your payroll doesn’t change between each cycle, look for an option with an autopilot mode that allows you to just set it and forget it. The best online payroll services will automatically calculate and file taxes as well as other withholdings.

Employee Self-Service

If you choose an online payroll service that is employee-friendly, it’s going to make your life much easier too. The best payroll software allows employees to edit their personal information, manage their benefits and taxes, as well as view old pay stubs.

You can even find payroll services that offer self-onboarding for employees. Just invite them to join so they can enter personal details and bank information. Your W-2 and 1099 workers can use the self-service features to access tax documents each year, instead of you having to print and mail them on your own.


Not every payroll system has built-in options for you to set up and manage employee benefits. I’m referring to things like:

  • Workers’ compensation
  • 401k plans
  • HSAs
  • Health insurance
  • Vision and dental

So if you’re offering these types of benefits to your employees, you need to find a payroll system that’s accommodating.

Pay Cycles

How often do you want to run payroll?

Lots of online payroll systems won’t restrict you to just once per week or twice per month. There are plenty of options out there that offer unlimited payroll each month.

This is great for those of you who don’t want to be tied into a specific schedule. In some instances, you can even let your employees decide when and how they get paid.

Maybe you want employees on salary to get paid automatically each week. But you want to manually pay independent contractors for specific amounts only once per month. There are online payroll services that let you do both with ease.


The cost of your payroll service will obviously be a factor in your decision.

In many cases, payroll plans are structured by a fixed monthly rate and an additional fee per employee. The monthly rates can range anywhere from $30 to $150. We’ve seen employee fees start as low as $4 per month and get as high as $12.

The price you pay will also have an impact on the features of your plan. If you’re looking for a full-service HR solution in addition to traditional payroll, you can expect to pay on the higher end of this spectrum.


Every business needs a payroll solution. But not every online payroll service is created equally. There are definitely options on the market that are better than others.

What’s the best online payroll service? The answer is different for each business owner. Here’s a quick recap of the best choices based on our methodology:

  • Gusto — Best overall online payroll service.
  • QuickBooks Payroll — Best solution for QuickBooks accounting integration.
  • Paychex — Best payroll service for large businesses.
  • OnPay — Best online payroll for small business.
  • SurePayroll — Best online payroll service for household workers.
  • Square Payroll — Best payroll service for Square POS and paying contractors.

Whether you have a small business, large corporation, or have unique payroll needs, there is definitely a solution for you in this guide.


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