Top 10 Best Cloud Based Nonprofit Accounting Software of 2026

Aplos is a cloud-based accounting software tailored specifically for nonprofits, churches, and mission organizations, offering fund accounting, donation management, budgeting, and financial reporting. It enables seamless tracking of restricted and unrestricted funds, automated bank reconciliations, and compliance-ready reports accessible from any device. With integrations for payments and payroll, Aplos simplifies nonprofit financial management while ensuring adherence to standards like FASB.

QuickBooks Online is a versatile cloud-based accounting platform from Intuit, widely used by small to mid-sized nonprofits for managing finances, tracking donations, and handling fund accounting through class and location tracking. It offers robust features like automated bank reconciliations, customizable reporting including Form 990 support, invoicing, payroll integration, and seamless mobile access from any device. While not exclusively designed for nonprofits, its scalability and extensive app marketplace make it adaptable for organizations needing reliable everyday accounting without heavy customization.

Sage Intacct is a robust cloud-based financial management platform tailored for nonprofits, featuring advanced fund accounting, grant tracking, and donor management to streamline compliance and reporting. It offers multi-entity support, real-time dashboards, and customizable workflows that adapt to complex nonprofit structures. With strong automation for accounts payable/receivable and integrations with CRM systems, it ensures accurate financial oversight across multiple funds and programs.

Blackbaud Financial Edge NXT is a cloud-based fund accounting software tailored for nonprofits, enabling precise tracking of restricted funds, grants, endowments, and budgets. It offers comprehensive financial management tools including AP/AR, general ledger, payroll integration, and advanced reporting for compliance like FASB standards. Seamlessly integrates with Blackbaud's CRM and fundraising platforms for a unified view of finances and donor data.

Xero is a cloud-based accounting software primarily designed for small businesses but adaptable for nonprofits through tracking categories for fund segregation and budgeting. It offers automated bank feeds, invoicing, expense tracking, payroll, and customizable reporting accessible from any device. While lacking native donor management or advanced grant tracking, it excels in general accounting with strong integrations to nonprofit-specific tools.

MIP Fund Accounting, offered by Community Brands, is a robust cloud-based solution designed specifically for nonprofits, providing advanced fund accounting to track restricted and unrestricted funds, grants, and endowments with precision. It includes comprehensive modules for general ledger, accounts payable/receivable, payroll, and budgeting, ensuring compliance with FASB and GAAP standards. The software excels in customizable reporting and integrates seamlessly with other nonprofit tools like donor management systems.

NetSuite, powered by Oracle, offers a comprehensive cloud-based ERP platform with a Nonprofit Cloud edition designed specifically for nonprofit organizations, providing fund accounting, grant management, donor tracking, and compliance reporting. It integrates financials with CRM, program management, and analytics to streamline operations across multiple entities and funds. The solution excels in scalability for mid-to-large nonprofits handling complex financial needs and regulatory requirements.

FastFund Accounting by Araize is a cloud-based accounting platform tailored for nonprofits, providing specialized fund accounting, grant management, and compliance reporting to handle complex financial structures. It supports multi-fund, multi-entity operations, budgeting, forecasting, and automated workflows for accounts payable/receivable, payroll, and bank reconciliation. Designed for scalability, it ensures adherence to FASB and GAAP standards while offering real-time dashboards and customizable reports for nonprofit financial oversight.

Denali Fund from Cougar Mountain is a cloud-based fund accounting software designed specifically for nonprofits, offering multi-fund tracking, grant management, donor CRM, and compliance reporting. It supports complex financial needs like encumbrances, allocations, and budgeting across multiple entities. The platform integrates payroll, AP/AR, and general ledger functions tailored to nonprofit standards such as FASB.

Wave is a cloud-based accounting platform offering free invoicing, expense tracking, bank reconciliation, and basic financial reporting, primarily designed for small businesses but usable by nonprofits for straightforward bookkeeping. It supports unlimited users and transactions without core feature costs, with mobile apps for on-the-go access. However, it lacks specialized nonprofit tools like fund accounting, donor management, or grant tracking, making it suitable only for very basic needs.