Nonprofit Bookkeeping Services – Trusted by 501(c)(3)s Nationwide
Accurate, affordable, and audit-ready bookkeeping tailored for nonprofits of all sizes.
Request a QuoteRemoteBooksOnline provides CPA-reviewed bookkeeping services tailored for nonprofit organizations. Whether you’re managing donor funds, tracking grants, or preparing for your next audit, we deliver clean financials, every month - all with flat-rate pricing and zero stress.
Where Nonprofit Bookkeeping Fits in Your Donor, Grant, and Program Workflow Nonprofits manage donations, grants, restricted funds, and compliance-heavy reporting. Most organizations follow this path:
- Clean up or catch up past donations, grants, and fund balances
- Track program expenses, fundraising activity, and administrative costs
- Produce monthly reports for transparency and board review
- Add CPA or outsourced accounting support for Form 990 and audits
If donations or fund balances do not reconcile, begin with QuickBooks Cleanup or Catch-Up Bookkeeping. Once accurate, rely on Monthly Nonprofit Bookkeeping and Accounting Services. For ministry-based organizations, also see Church Bookkeeping.
Why Nonprofits Choose Us
Categorize donations, grants, and restricted funds accurately
Prepare board-ready financial reports
Maintain compliance with IRS and state regulations
Support for QuickBooks and fund accounting setups
No contracts. No setup fees. Fully remote.
Start your first month free – No contracts. No surprises.
Who We Serve
501(c)(3) nonprofits- Foundations and charitable organizations
- Arts, education, environmental, advocacy, and social services orgs
- National and community-based nonprofits
Client Reviews
We support business owners across the country with reliable, remote bookkeeping. Here’s what a few of them say:
They helped us clean up 18 months of backlogs and prepare for our first audit
Sarah M, CFO
Our board loves the new monthly reports. Clean, professional, and always on time
James L, Executive Director
We’re a small nonprofit nationwide, and this service is a game-changer for our operations
Emily R, Program Manager
Form 990 support and fund tracking made our grant renewal process seamless
Michael T, Finance Director
Best decision we made last year. Finally have clarity around our restricted vs unrestricted funds
Amanda K, Treasurer
Frequently Asked Questions
Yes. We support nonprofits in and around nationwide with CPA-reviewed monthly bookkeeping.
Absolutely. We categorize donations, grants, and restrictions using fund accounting principles.
Yes. We deliver monthly financials that are ready for board review, audits, or grant renewals.
Yes. We offer catch-up and cleanup services, including back years if needed.
We work with QuickBooks Online and Desktop, and can assist with nonprofit-friendly configurations.
No. Our flat-rate includes prep support for 990 filing (bookkeeping only, not the filing itself).
Fully remote. We support nonprofits nationwide and across the U.S.
Yes. We’ve worked with hundreds of nonprofits and configure the chart to fit your structure.
Yes. Whether you're a brand new 501(c)(3) or a large national org, we adjust to fit your needs.
Yes. We can handle reconciliations, reporting, or the entire workflow.
See more answers in our full Nonprofit Bookkeeping Services FAQ →
Choosing the Right Bookkeeping and Accounting path for your Nonprofit
Nonprofits manage donors, grants, funds, and compliance. Some are behind on reporting, others need a steady monthly process, and many require strong accounting or CPA oversight.
Most organizations choose one of these paths:
If your books are behind:
If you need consistent monthly bookkeeping:
If you need accounting and oversight:
Helpful Articles for Nonprofit Bookkeeping
Explore nonprofit-specific guides for tracking grants, board reporting, and IRS compliance:
- Nonprofit Bookkeeping - Why Mission-Driven Organizations Still Need Accurate Financials
- How to Track Restricted and Unrestricted Funds in a Nonprofit
- What to Include in a Monthly Nonprofit Financial Report
- How to Prepare for a Nonprofit Audit with Clean Books
- The Real Cost of DIY Bookkeeping for Small Business Owners
Learn More About What We Offer
Start your first month free – No contracts. No surprises.
Explore Nonprofit Bookkeeping Service by Location
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Why Small Businesses Trust RemoteBooksOnline
Trusted by 1000+ business owners and 300+ firms
CPA-reviewed accuracy
Flat monthly pricingOur medical and dental bookkeeping ensures HIPAA-compliant financials and simplified insurance reconciliation.
Our bookkeeping services near you help nonprofits stay donor-ready, audit-compliant, and financially organized.
If you’d like clarity on terms like fund accounting, restricted contributions, or grant reporting, the Glossary provides definitions written specifically for nonprofit organizations.