Best Nonprofit Payment Processing Software
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Compare the Top Nonprofit Payment Processing Software as of October 2025
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What is Nonprofit Payment Processing Software?
Payment processing software is software used to facilitate payments made to and from businesses. It can process these transactions quickly and securely, allowing merchants to run their operations smoothly. The software is often integrated with point-of-sale systems or accounting programs, allowing for seamless tracking of all financial information. Users can easily manage payment gateways, report on transactions, and reconcile accounts with detailed analytics tools. Compare and read user reviews of the best Nonprofit Payment Processing software currently available using the table below. This list is updated regularly.
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1
FreshBooks
FreshBooks
FreshBooks makes getting paid speedy and straightforward. Offer credit cards payrments, Apple Pay, and bank transfers to your clients and get paid twice as fast. Plus, save time with automatic payment recording and invoice matching. Try it Free or save 70% on FreshBooks Now.">
Starting Price: $6.30/month -
2
AvidXchange
AvidXchange
AvidXchange modernizes how middle market businesses manage expenses and payments with AI-enhanced software and support from real people. With 25 years of experience, our solutions automate manual tasks, reduce costs, and streamline your AP process, so you can focus on what matters most. Featuring one of the largest supplier networks in the middle market, AvidXchange offers in-depth industry expertise across real estate, community association management, healthcare, hospitality, education, hospitality, and nonprofits, as well as construction, financial services, and media through the acquisition of Core Associates, BankTEL, and FastPay. Why AvidXchange? - Trusted by 8,000+ businesses to digitize and automate AP workflows - 1.2 million suppliers paid through the AvidPay Network in the last five years - 240+ accounting system and ERP integrations Increase efficiency, visibility, and control in your AP process. Learn more at avidxchange.com -
3
Mollie
Mollie
Mollie is a money management platform that powers growth for over 250,000 businesses – from startups to enterprises. It's a single platform to get paid and simplify your finances, with online and in-person payments, subscriptions, financing, reconciliation, invoicing, and fraud prevention tools. Get started in minutes with transparent pricing, no hidden fees, and no lock-in contract.Starting Price: €0.25 per transaction -
4
BILL
BILL
BILL (NYSE: BILL) is a leading financial operations platform for small and midsize businesses (SMBs). As a champion of SMBs, we are automating the future of finance so businesses can thrive. Our integrated platform helps businesses to more efficiently control their payables, receivables and spend and expense management. Hundreds of thousands of businesses rely on BILL’s proprietary member network of millions to pay or get paid faster. Headquartered in San Jose, California, BILL is a trusted partner of leading U.S. financial institutions, accounting firms, and accounting software providers. For more information, visit bill.com.Starting Price: $45 per user per month -
5
FlexPay
FlexPay
FlexPay is the leading failed payment recovery solution for businesses with a subscription or recurring billing payment model. FlexPay’s innovative platform uses multiple technologies to achieve the highest number of retained customers, resulting in reduced involuntary churn, longer life span after recovery, and higher revenue. Leading brands like LegalZoom, Hooked on Phonics, and ClinicSense trust FlexPay to recover failed payments, reduce churn, and increase customer lifetime value. FlexPay’s AI-driven INVISIBLE RECOVERY™ technology works directly with the payments system to quickly resolve failed payments without customer involvement. When customer help is needed, ENGAGED RECOVERY™ maintains a positive customer experience. FlexPay integrates with 100+ billing and payment processing systems including Stripe, ARIA, Recurly, and Chargebee, meaning quick set-up, no disruptions to billing, and instant recovery improvements compared to traditional in-house recovery methods. -
6
Stripe
Stripe
The new standard in online payments. Stripe is the best software platform for running an internet business. We handle billions of dollars every year for forward-thinking businesses around the world. Stripe builds the most powerful and flexible tools for internet commerce. Whether you’re creating a subscription service, an on-demand marketplace, an e-commerce store, or a crowdfunding platform, Stripe’s meticulously designed APIs and unmatched functionality help you create the best possible product for your users. Millions of the world’s most innovative technology companies are scaling faster and more efficiently by building their businesses on Stripe. We believe that payments is a problem rooted in code, not finance. We obsessively seek out elegant, composable abstractions that enable robust, scalable, flexible integrations. Because we eliminate needless complexity and extraneous details, you can get up and running with Stripe in just a couple of minutes.Starting Price: 2.9% + 30¢ per charge -
7
Square Payments
Block
Accept every payment quickly, easily, and securely. Easily accept card payments—no matter if you’re selling on the go or at your store. Streamline the way you create, send, and track your invoices. Customer not there in person? Take remote credit card payments over the phone or from your computer, and get paid fast. Create and grow your online store, and seamlessly accept online payments with Square. We make accepting cards as fast, painless, and secure as possible. There are no extra fees, no long term contracts, and no tricks. Just fast, secure payments you can depend on. -
8
Square POS
Block
Square POS is a simple and intuitive point-of-sale (POS) solution that delivers a robust set of tools for sales tracking, inventory, online payment processing, digital receipts, and analytics. Available for Android and iOS devices, Square POS provides a recording of transactions offline by storing data locally and then automatically syncing all information when their is an Internet connection. Additionally, Square POS enables users to seamlessly manage details, such as names, prices, and quantities and provides features such as a barcode scanner, discounts, credit card processing, gift cards, refunds, and more. Whether or not your business has a brick-and-mortar location, building a robust online presence can help you engage customers from a distance. Square’s online solutions work with any of the above point-of-sale systems, or you can use them on your own. We give you the tools to create thumb-stopping, compelling, and on-brand ads that perform. -
9
Birdeye
Birdeye
irdeye is the #1 AI platform for Hyperlocal Marketing®, purpose-built for multi-location brands. Over 150,000 businesses rely on Birdeye’s intelligent AI agents to run marketing and drive business outcomes. Birdeye helps multi-location brands enhance online reputation, engage customers across social, search, and web, and gain real-time insights into consumers and competitors — all to boost leads & increase foot traffic, reduce costs, and grow revenue. Founded in 2012 and headquartered in Palo Alto, Birdeye is led by a team of innovators from Google, Amazon, Salesforce, and Yahoo and is backed by the who’s who of Silicon Valley, including Salesforce founder Marc Benioff, Yahoo co-founder Jerry Yang, Trinity Ventures, World Innovation Lab, and Accel-KKR.">
Starting Price: $250/month -
10
Juspay
Juspay
Juspay's Payments Orchestration Platform offers a comprehensive product suite for businesses, including open-source payment orchestration, global payouts, seamless authentication, payment tokenization, fraud & risk management, end-to-end reconciliation, unified payment analytics & more. The company’s offerings also include end-to-end white label payment gateway solutions & real-time payments infrastructure for banks. These solutions help businesses achieve superior conversion rates, reduce fraud, optimize costs, and deliver seamless customer experiences at scale. Trusted by leading enterprises across the US, Europe, LatAm and APAC, Juspay’s no-code platform enables businesses to integrate 300+ local payment methods across 50+ countries, design a pixel-perfect checkout UI, deploy seamlessly across all platforms, launch customizable offers & incentives, reconcile your transactions across PSPs & channels, and track PSP performance & buyer conversion. -
11
RetailEdge
High Meadow Business Solutions
RetailEdge is an easy to use and feature-rich point of sale (POS) and inventory management software solution for retail businesses. RetailEdge offers multi-location support, credit card processing, website integration, mobile POS, and gift card management capabilities within a suite. The solution supports secure and mobile payments like EMV and Apple Pay and integrates with multiple e-commerce platforms for efficient order processing and price updates. RetailEdge was developed in June of 1989 to provide a powerful, flexible, full-featured POS software and hardware solution at a reasonable price that is easy to install, use, and configure, but also affordable to maintain and run. We strongly believe that a good POS solution, in addition to providing great features for a low price, must be supported well. So we have developed a strong support system that provides a backbone of local resellers and quick access to US-based Tier 3 (highest) level support.Starting Price: $495.00/one-time -
12
EBizCharge
EBizCharge
EBizCharge is the leader in integrated B2B payment processing, powering secure payment acceptance for over 400,000 users across the US and Canada. Our payment platform allows businesses to securely accept transactions anywhere, anytime, inside 50+ ERP, CRM, and accounting solutions. EBizCharge transforms payment operations by increasing processing efficiency, eliminating double entry, reducing errors, and improving security. Our suite provides online and mobile credit card processing, ACH payments, multi-currency support, real-time processing, secure encryption and tokenization, email payment links, customer portals, and comprehensive transaction reporting. EBizCharge is PCI-compliant with advanced data encryption and tokenization, ensuring all payment data is secured. EBizCharge integrates with QuickBooks, NetSuite, SAP, Oracle, Sage, Microsoft Dynamics, Salesforce, Acumatica, and more.Starting Price: $25/month -
13
Melio
Melio
Melio is an accounts payable tool built to simplify bill payments, boost workflow efficiency, and optimize cash flow for businesses of all sizes. To get started, try all of Melio's features free for 30 days! Pay vendors online through bank transfers or credit/debit cards, even if they typically accept checks—Melio manages the manual work for you. Effortlessly integrate with QuickBooks and Xero to ensure your financial records stay current. With Melio, pay by bank transfer or card to extend cash flow and earn rewards. Adding vendor or bill details is a breeze—input them manually, upload files, or take a photo of invoices. Schedule payments to align with your cash flow, and let Melio handle the rest. International vendor payments are made easy by paying in their local currency for products and services your business needs. The Melio mobile app, available for iOS and Android, lets you monitor and manage payments anytime, giving you full control over your finances on the go.Starting Price: Free -
14
Fraud.net
Fraud.net, Inc.
Fraudnet's AI-driven platform empowers enterprises to prevent threats, streamline compliance, and manage risk in real-time. Our sophisticated machine learning models continuously learn from billions of transactions to identify anomalies and predict fraud attacks. Our unified solutions: comprehensive screening for smoother onboarding & improved compliance, continuous monitoring to proactively identify new threats, & precision fraud detection across channels and payment types. With dozens of data integrations and advanced analytics, you'll dramatically reduce false positives while gaining unmatched visibility. And, with no-code/low-code integration, our solution scales effortlessly as you grow. The results speak volumes: Leading payments companies, financial institutions, innovative fintechs, and commerce brands trust us worldwide—and they're seeing dramatic results: 80% reduction in fraud losses and 97% fewer false positives. Request your demo today and discover Fraudnet. -
15
Datagate Telecom Billing
Datagate Innovation
Datagate is a SaaS, telecom billing solution for MSPs that sell UCaaS, VoIP, mobile voice & data services under their own brand. Datagate integrates with popular software systems that MSPs use including ConnectWise Manage, QuickBooks, Xero, Stripe, Authorize.net and others. Suitable for MSPs in USA, Canada, UK, Australia and New Zealand; Datagate & partners handle all telecom tax & compliance requirements. -
16
Chargebee
Chargebee
Chargebee is a recurring billing and subscription management tool that helps SaaS and SaaS-like businesses streamline Revenue Operations. Chargebee integrates with the leading payment gateways like Stripe, Braintree, PayPal etc. around the world to let you automate recurring payment collection along with invoicing, taxes, accounting, email notifications, SaaS Metrics and customer management. Chargebee handles all your crucial workflows from lead to ledger with power-packed integrations that include Salesforce, Xero, Quickbooks, Avalara, Slack, among others. Deflect cancellations at scale straight from Chargebee with a best-of-breed solution, Chargebee Retention, that provides personalized experiences that get results. Run experiments based on customer and subscription attributes taken straight from Chargebee to ensure you provide a personalized and relevant cancel experience.Starting Price: $299/month -
17
The Card Association
The Card Association
Unlock effortless payment processing solutions with The Card Association. Our comprehensive array of setup options ensures seamless transactions for your business needs. Whether you require traditional card reader payments, convenient mobile payment capabilities, robust e-commerce solutions, or fully integrated POS (point of sale) applications, we have you covered. With our user-friendly interface and versatile platform, you can easily navigate through various payment methods to cater to your diverse clientele. Our team is dedicated to providing you with top-notch support and guidance every step of the way, ensuring a smooth transition and optimal performance. Experience the convenience and efficiency of modern payment processing with The Card Association. Join countless satisfied merchants who have streamlined their transactions and elevated their business operations. Discover why businesses trust us for secure, reliable, and customizable payment solutions. -
18
OneBill
OneBill
OneBill is an end-to-end subscription management, billing, and revenue management platform that powers the entire customer lead-to-revenue generation experience. OneBill supports all types of billing models such as one-time billing, subscription billing, recurring billing, and usage-based billing. OneBill’s seamless integration with other enterprise systems such as carriers & service providers, payment gateways, accounting & admin, taxation, and CRM & ERP platforms is made possible with open APIs. The platform covers all aspects of a business from CPQ, automated order provisioning & activation, billing & invoicing, all the way to revenue reporting, customer subscription management, and channel partner commission management. OneBill has been helping SMBs, SMEs, and large enterprises to reduce billing errors, compliance risk and drive greater efficiency with an end-to-end billing and revenue management solution fully integrated with some of the world’s leading solutions.Starting Price: $1500.00 -
19
Easy Pay Direct
Easy Pay Direct
Easy Pay Direct is the fastest safe way to process payments. We offer full service merchant accounts so you can worry less about account shutdowns, holds and reserves and focus more on your business. From its conception, Easy Pay Direct was designed to make your life easier. From our staff to the technology within the solution itself, we are here to help. Business owners need products that are efficient, effective, and, most importantly, easy to use. You have enough on your plate; processing credit cards should not be a headache. Easy and seamless integration to over 250 shopping carts, recurring billing, decline recovery, chargeback management, custom payment links, white glove customer service, plus so much more. Our customer service is here to help, and we are always a call, text, or email away whenever you need us. Find out why the nation's top entrepreneurs trust Easy Pay Direct. Notable clients: Grant Cardone, Frank Kern, Wes Watson, Fortune Builders & MoreStarting Price: 2.44% and 0.29 -
20
PremierCashier
NetResources
Tired of integrating PSP's and handling cashier complexity? PremierCashier is your no-code, scalable e-commerce solution. With one API integration you can access hundreds of payment solutions. Any device, any language, and any currency - including many popular cryptocurrencies. Smart credit card routing with intelligent failover, clever rules and algorithms to ensure you never lose a transaction. Bring your own merchant accounts or use our payment consulting to ensure you maximize your payment potential in any geo market. Our payment orchestration software is lightning fast and extremely customizable. Automatic customer profiling allows you to keep your processing secure while providing your customers with a VIP experience. And our dashboard is unrivaled in terms of providing you with actionable information at your fingertips. Plus, our latest API makes for a fast and robust integration to your CRM/ERP. Contact us to get started!Starting Price: $750 USD - no percentages! -
21
Google Pay
Google
Google Pay is the fast, simple way to pay online or make contactless payments with your phone. Your payment info is protected with multiple layers of security so you can pay with peace of mind – all the time. See where you’ve made the most recent transactions, right on your home screen. Find past purchases, loyalty cards, offers - even online ordering - all in one place. Keep credit cards, debit cards, transit passes, and more on your phone for quick, easy access. Bring your accounts together for a clearer view of what you have, what you’ve spent, and recent activity. Easily find past purchases from weekend getaways, past payments, and tickets you saved in your wallet. And if you choose, you can link your bank account, Gmail, and Google Photos to search even more transactions. -
22
HelmBot
HelmBot
Appointment scheduling, point-of-sale, staff management, marketing automation, and a whole lot more. HelmBot makes it easy for business owners to stay on top of all the complicated parts of their business in one place. HelmBot is designed to save you time and bring in extra appointments, every single day.Starting Price: $95 per month -
23
Apple Pay
Apple
Apple Pay is easy and works with the Apple devices you use every day. You can make contactless, secure purchases in stores, in apps, and on the web. And you can send and receive money from friends and family right in Messages. Apple Pay is a safer way to pay, and even simpler than using your physical card. Using Apple Pay with your iPhone or Apple Watch is quick and secure. It’s a safer way to pay that helps you avoid touching buttons or exchanging cash. Use Apple Pay on the App Store to buy apps and games, or within apps to pay for a ride, a pizza delivery, or a new pair of sneakers — with just a touch or a glance. You can also use Apple Pay for a subscription to Apple Music, Apple News+, and Apple Arcade. Or for upgraded iCloud storage and other Apple services. When you’re making purchases on the web in Safari on your iPhone, iPad, or Mac, you can use Apple Pay without having to create an account or fill out lengthy forms. -
24
Synder
Synder
One of the best accounting software for small businesses, Synder is the right solution for those who seek high-quality service, 24/7 support, and advanced automated features. After you connect all of your sales channels and payment platforms, you will be provided with automatic bookkeeping, which guarantees precise and error-free synchronization of your transaction data, categorization, and live data reconciliation within a single interface. Synder makes accurate records of your payment data without duplicates. Detailed and 100% correct Profit and Loss Reports contain additional helpful information to analyze your business’ cash flow and budget planning. The software runs smoothly and automatically, and there is no need to log in to get it done. Synder lets you apply sales taxes, taxes based on location, shipping address, product name, etc. Recurring invoices remind customers of regular payments. Synder offers a free trial and a demo to learn more about this breakthrough software.Starting Price: $39.99 per month -
25
Blockonomics
Blockonomics
Blockonomics enables online stores to accept bitcoin payments on their website. The payments go directly to your BTC wallet making it completely decentralized. There is no KYC involved and no limitation on the BTC amount that can be received. The entire setup takes less than 5 minutes and you get a beautiful checkout experience with the payment screen that integrates with your website's theme, additionally, there are no redirects to an external page to complete the checkout. Plugins are available for all major website builders and payment API for custom websites. Blockonomics also offer payment buttons that can be embedded on any custom website and payment links that are easily shared online. Additional services include bitcoin invoices and block explorer. There are a variety of tutorials available to get you started plus a 24 X 7 live support. Blockonomics charges a nominal fee of 1% for all transactions with the first 20 transactions free. Download the free plugin now.Starting Price: 20 Free Transactions + 1% Fee -
26
Venmo
PayPal
Pay friends and family with a Venmo account using money you have in Venmo, or link your bank account or debit card quickly. Send money and make purchases at approved merchants. Remember the moments you share with friends. Split dinner, send a birthday gift, or just say hello. Move money from Venmo to your bank account. We use encryption to help protect your account information and monitor your account activity to help identify unauthorized transactions. Pay family and friends with Venmo accounts using a phone number or email. If they don't have a Venmo account, they'll just need to create one. Find friends automatically by syncing your Facebook or phone contacts. When you send money using your Venmo balance, bank account, debit card or prepaid card, we waive fees so it’s free. Our standard 3% fee applies to credit cards. Receiving money and making purchases in other apps is always free.Starting Price: Free -
27
Paystone Loyalty
Paystone
Paystone's powerful Customer Loyalty Software lets your customers sign up and redeem their rewards right from your own debit machine. You can also sell and redeem gift cards, send personalized email and text message offers with built-in marketing automation, and see your loyalty program ROI with user-friendly reporting and analytics. A platform used by over 25,000 small businesses and large enterprises, boosting customer spending and generating impressive returns has never been easier. Turn casual customers into loyal regulars with Paystone.Starting Price: $99 per month -
28
Skrill
Skrill
With Skrill you have an online wallet. You can pay online, send money, have a Skrill card, and a loyalty programme. Skrill has been helping to make it, send it and spend it for millions of customers since 2001. So wherever you are and whatever you want to do with your money, just skrill it. -
29
Amazon Pay
Amazon
Amazon Pay makes it simple for hundreds of millions of customers around the globe to pay for products and services using the information already stored in their Amazon accounts. To make a payment, you can use any of the payment methods in your Amazon account. The Amazon Pay checkout solution increases shopper engagement, brand visibility, and security for your business, letting hundreds of millions of Amazon customers pay their way, every day. Amazon Pay is a service offered to Amazon customers, and you are enabled to use it wherever you see it — whether that is clicking the Amazon Pay button when checking out on your favorite online stores, managing your payment methods in your account on Amazon.com or using Amazon Pay on Alexa. There are no additional sign-ups or sign-ins. Your transactions are safe and secure, and everything can be tracked in your Amazon account. -
30
Chargezoom
Chargezoom
Unlock the power of your payments to accelerate growth. Fully Integrated Payments, Easy as 1-2-3. One-click integration connects most major accounting packages with your existing payment gateway. In less than 5 minutes payments will automatically reconcile in real-time, saving hours of effort daily. Chargezoom's integrated payment solution works with over 20 popular payment gateways; nothing to change, no transaction fees, just point, click and integrate! Two-Way Sync Payment Dashboard eInvoicing / Pay by email Compliant Surcharging Subscription Management Tokenized Customer Vault Developer-First API Building your payments infrastructure has never been so easy!Starting Price: $9/month
