The very best payroll software application for nonprofits in 2023


Required a payroll service for your nonprofit organization? Check out our list of the top payroll software providers for nonprofits in 2023, with comprehensive reviews and prices details.

Nonprofit companies play an essential role in society, and should manage their financial resources and payroll efficiently to guarantee their operations run efficiently. However, handling payroll can be lengthy and complex, specifically for companies that rely on volunteers and have limited resources. That is where payroll software application comes in useful.

With the right payroll software, nonprofits can automate their payroll procedures, save money and time, and concentrate on their mission. This short article will compare the best payroll platforms for nonprofits in 2023 to assist you choose the one that fits your company’s needs and budget plan.

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Functions comparison table for finest payroll software for nonprofits

Features Gusto Paychex Rippling Justworks Papaya Global QuickBooks
Limitless pay runs Yes No Yes Yes Yes Yes
Files payroll taxes Yes Yes Yes Yes Yes Yes
International payroll No No Yes No Yes No
Benefits administration Yes Yes Yes Yes Yes Yes
Nonprofit software combinations Aplos and Monkey Pod Unusual Offering Intense Funds No No Kindful, Fundly and DonorPerfect

Top payroll software for nonprofits in 2023

Gusto: Best for integrations with other not-for-profit software

Gusto is a cloud-based payroll and personnel management software application designed to streamline monetary operations like payroll, tax filing, benefits management and compliance. Widely utilized by businesses and corporations, Gusto likewise serves nonprofit companies.

The Gusto logo.< img src= ""alt= "The Gusto logo design."width ="200"height=" 200"/ > Image: Gusto. Gusto uses detailed payroll options that make it possible for nonprofit teams to enhance their financial operations. By automating payroll treatments, Gusto helps with monitoring worker work hours and payrolls as well as tax-related payments and filings.

The platform incorporates with charity donation software like Aplos and Monkey Pod, making it easy for nonprofit owners to flexibly handle their contributions. In addition, Gusto’s payroll solution provides managers with practical access to their team’s financial data, helping with effective organization and effectiveness.


  • Gusto enables workers to track the number of hours they have actually worked.
  • Staff members can add to the not-for-profit straight from their paychecks.
  • Gusto provides functions that assist nonprofits with tax estimations.
  • With Gusto, companies can automate and tailor employee pay rates and schedules.
  • Workers can likewise automate short-term savings on the platform.


  • Offers personalized reporting.
  • Unlimited payroll runs.
  • Lets staff members contribute from their paycheck utilizing Gusto Offering.


  • Nonprofits are not provided any discount rate.
  • Insurance is still restricted to only 39 U.S. states.


Gusto is priced in three different tiers:

  • Easy strategy: This strategy starts at $40 monthly, plus $6 a month per employee.
  • Plus strategy: This begins at $60 monthly, plus $9 a month per staff member.
  • Premium strategy: This rates plan is offered upon demand.

Paychex: Finest for payroll tax compliance assistance

The Paychex logo.< img src="" alt="The Paychex logo."width=" 200"height="200"/ > Image: Paychex is a top payroll software application that supports nonprofits. The platform assists organizations calculate work rates, file and manage payroll taxes, and process advantages administration. The solution deals with little and mid-sized organizations along with nonprofits. Paychex’s platform simplifies financial activities such as tracking donations, filing taxes and recording expenditures for nonprofits.

In addition, Paychex uses numerous staff member payroll processing functions that make it easy for companies to handle different kinds of payment from their desktops or cellphones. Depending upon the type of payment method your organization provides, Paychex offers payroll choices such as direct deposit, paper checks, 24/7 real-time payments and Pay-on-Demand.


  • Paychex has tax compliance support that can help companies with federal, state and regional laws.
  • The platform also supplies staff member compensation declares administrations.
  • Paychex uses monetary reporting ability for nonprofits.
  • There is time and participation tracking for managers to create reports on how employees are doing their tasks.


  • Paychex reports are personalized to match your organization.
  • Uses quick payment.
  • Paychex has a mobile variation for simple ease of access on the go.


  • The pricing structure does not fit smaller nonprofits.
  • Pricing for greater strategies is not detailed.


Paychex rates comes in three tiers:

  • Paychex Flex Essentials: Begins at $39 each month, plus $5 per worker.
  • Paychex Flex Select: Pricing is tailored based upon your needs.
  • Paychex Flex Pro: Custom-made pricing based upon your needs.

Rippling: Finest for payroll versatility

The Rippling logo. Image: Rippling is a U.S. and worldwide HR and payroll platform for both for-profit and nonprofits. Developed with a minimalist design, Rippling offers nonprofits a payroll system they can establish and begin using without problem.

From tax reductions, PTO and 401(k) calculations to HSA or FSA deductions, and filing payroll taxes across all 50 states in the U.S., Rippling looks after compliance activities for you.

With Rippling, you can use the suites of prebuilt reports and personalize them for your worker data management. From the payroll dashboards, you can see, evaluate and share reports throughout various departments for seamless decision-making across your company.


  • Rippling offers over 500 third-party software combinations within their systems.
  • The software application provides a merged worker database for managing worker data immediately throughout all modules, ensuring accuracy.
  • Rippling has features for handling and filing payroll taxes throughout the U.S.
  • . It provides the ability for international payroll, offering companies more employing flexibility.
  • Rippling allows organizations to pay staff members in their local currency.


  • Rippling offers payroll beyond the walls of the United States.
  • The platform comes with a vast app integration.
  • It’s simple to track efficiency with staff member track codes.


  • Payroll services draw in additional charges.
  • There is no totally free trial.


  • The plan begins at $8 a month per user. You can likewise get a personalized rate based upon your business requirements.

Justworks: Finest for compliance

Justworks Logo. Image: Justworks is a cloud-based HR and expert company organization that offers payroll services to businesses of any size, including nonprofits. The platform makes it easy for services to run payroll through integrated automation functions. Organization managers can set up their staff member profile on the software by choosing the payment method, kind of work and payment mode from the payroll features list.

Aside from payroll, Justworks likewise assists you to process tax filings for your W-2 and 1099 workers. In addition, you can delight in more payroll versatility through their weekly and biweekly payment scheduling or select to run your off-cycle payments when essential.


  • Off-cycle pay runs can be done as needed with no extra expense.
  • The platform has tax filing functions for W-2 and 1099 workers.
  • Provides payroll services and tax filing in all 50 U.S. states.
  • The platform provides payroll versatility in a way that allows you to split deposits throughout multiple accounts.


  • They use discount rates to nonprofits.
  • Justworks uses 24/7 client support.
  • Provides compliance support.


  • Time-tracking needs an additional cost as a paid add-on.
  • Two-tier-pricing methods might be costly for smaller organizations.


Justworks has 2 rates tiers:

  • Fundamental: This strategy starts at $59 a month per employee.
  • Plus: This option begins at $99 a month per worker.

Papaya Global: Best for international payroll management

The Papaya Global logo. Image: Papaya Global Papaya Global is a professional employer organization and HR software application service that can offer payroll services to nonprofits on a global scale. Offering payroll services to over 160 countries, Papaya automates accounting activities for organizations such as expense management, payment scheduling and regional currency payments.

For nonprofits with a worldwide presence, Papaya makes it possible to pay employees in their local currency without going through the hassle of currency conversion. For much better reporting, auditing and analytics, services can take advantage of Papaya’s BI report and analytics to evaluate region-specific work costs and trends.


  • The platform provides support with payment processing and advantages administration for workers throughout over 160 nations.
  • Papaya makes it easy for employees to download payslips in their regional languages.
  • The software application uses robust reporting, auditing and analytics tools.
  • Companies can utilize Papaya International to process their employee migration to the U.S.


  • Provides cross-border payment.
  • Deals tax and advantages administration at no extra expense.
  • Businesses are at liberty to tailor their needs to show a different prices.


  • The standard plan covers limited features.
  • Payroll rates differs per nation.
  • There is an onboarding cost.


Although the pricing on Papaya Global can be tailored to suit specific requirements, they use 4 rates plans:

  • Payroll: This plan starts from $20 a month per employee.
  • Professional management: Begins with $25 a month per employee.
  • Payroll intelligence suite: Begins with $250 a month.
  • International EOR: This strategy chooses $770 a month per worker.

QuickBooks: Best for contributions and handling grants

Intuit QuickBooks Logo. Image: QuickBooks is another payroll software providing a number of vital payroll processing functions for not-for-profit organizations. The software permits nonprofits to handle expense sorting, classify expenses by funds or programs, track and manage contributions, and create custom-made reports.

In-depth budget-tracking tools are readily available on QuickBooks that permit nonprofits to track budgets, along with handle grants and donations. There is also a sophisticated monetary reporting function for bank reconciliations.

In addition, QuickBooks assists nonprofits to accept donations by debit card, credit card, cash, bank transfer or check. There is likewise a mobile app for access to the QuickBooks payroll services.


  • QuickBooks permits combination with banks to process contributions by means of debit and credit cards.
  • You can import reports from contribution apps like Kindful, Fundly and DonorPerfect to the QuickBooks platform.
  • The software application provides compliance support to services.
  • The platform provides automated reporting ability that assists companies prepare for yearly internal revenue service filing.


  • Deals flexibility in terms of how nonprofits can get donations.
  • Offers next and same-day debit.
  • It’s simple to sync your not-for-profit accounting software.


  • Tax penalty defense only comes with the Elite strategy.
  • No 24/7 client support.


QuickBooks offers three prices prepare for nonprofits.

  • Plus: This begins at $42.50 monthly.
  • Advanced: Starts at $100 monthly.
  • Enterprise for nonprofits: Begins at $135 monthly.

How to choose the right payroll software for nonprofits

Selecting the right payroll software application for nonprofits can significantly simplify payroll management and conserve time and resources. Here are some aspects to think about when selecting the ideal payroll software for your not-for-profit organization:


Look for a software application service that includes features that satisfy your company’s particular payroll needs. For instance, if your not-for-profit has per hour employees or different pay rates, make certain the software application provides those alternatives. Also, consider whether you need functions like direct deposit, automated tax calculations and the ability to print checks.


Your not-for-profit might grow with time, and you don’t want to change payroll software application whenever you include a brand-new worker or broaden your company. Select a software that can grow with your nonprofit and manage an increasing variety of employees and payroll intricacies gradually.

Assistance and compliance

Ensure that the payroll software application vendor provides reliable support, including technical assistance, training and assistance with compliance-related questions. It’s likewise crucial to note that nonprofits undergo numerous compliance requirements connected to payroll, such as tax-exempt status and IRS Kind 990 reporting. Look for payroll software application that can manage these compliance requirements and keep up to date with any changes in policies.


Payroll software application must be simple to use, even for individuals who are not tech-savvy. An user-friendly user interface and clear guidelines, with released how-to documents on the software, can assist make sure that your staff can quickly manage payroll and decrease the possibility of errors.

Overall, as a nonprofit owner or manager, it is very important to be aware of your particular needs and spending plan and compare them to the functions above. For example, if you are more interested in payroll software that is user-friendly, economical, supports quick and direct deposit, and provides several combinations, then Gusto, QuickBooks and Paychex can do the job. On the other hand, if your nonprofit has workers on an international scale, Papaya Global and Rippling will be able to serve this purpose.

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