Preparing for a Nonprofit Audit: What Boards Should Know 

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For nonprofit organizations, an audit is not merely a financial event, it is a governance responsibility. 

While management and finance staff carry out much of the technical preparation, the board of directors holds fiduciary oversight. Donors, grantors, regulators, and community stakeholders rely on audited financial statements to assess transparency, stewardship, and operational integrity. A well-prepared audit reinforces credibility. A disorganized one raises questions that can linger far beyond the audit report. 

Understanding what to expect and how to prepare throughout the year can transform the audit from a stressful annual scramble into a structured governance exercise. 

Why Nonprofit Audits Matter

Nonprofit audits are often required when organizations: 

  • Exceed federal funding thresholds (including Single Audit requirements under Uniform Guidance) 
  • Meet state revenue thresholds triggering statutory audit mandates 
  • Maintain lender or grantor relationships that require audited financials 
  • Include audit requirements within bylaws or board policy 

Even when not legally required, audits provide independent assurance that financial statements are presented fairly in accordance with GAAP and that internal controls are functioning effectively. 

For boards, this connects directly to fiduciary duty. Board members are responsible for ensuring that: 

  • Funds are used in accordance with donor intent 
  • Restricted and unrestricted funds are properly segregated 
  • Financial reporting is accurate and complete 
  • Risks are identified and addressed proactively 

An audit is ultimately about accountability, not compliance alone. 

The Board’s Role in the Audit Process

Board members are not expected to prepare reconciliations or draft financial statements. However, effective governance requires active oversight in several areas: 

  1. Confirming that financial reporting throughout the year is accurate and timely 
  2. Ensuring internal controls are designed and operating effectively 
  3. Engaging in meaningful communication with independent auditors 

Boards that treat the audit as solely a management function often miss early warning signs of process gaps or control weaknesses. 

Preparation begins long before fieldwork starts. 

Build Audit Readiness Through a Competent Monthly Close

One of the most overlooked drivers of a smooth audit is the quality of the monthly and annual closing process. 

Organizations that maintain disciplined monthly closings experience fewer surprises during year-end fieldwork. A competent close should include: 

  • Confirmation that all transactions for the period are recorded 
  • Posting of necessary accrual and adjusting journal entries 
  • Reconciliation of bank and investment accounts 
  • Closing of sub-ledgers 
  • Review of preliminary financial statements 
  • Resolution of discrepancies before the books are finalized 

When financial statements are routinely reviewed and finalized, the numbers remain stable and dependable. This consistency reduces the volume of audit adjustments and minimizes last-minute corrections. 

Boards should regularly review financial statements that include budget-to-actual comparisons and variance explanations. As discussed in Top 5 Financial Metrics Every Nonprofit Board Should Review Monthly, consistent oversight of key indicators strengthens governance long before audit season arrives. 

Strengthen Internal Controls Before the Auditors Arrive

Internal control deficiencies are among the most common nonprofit audit findings. 

Boards should evaluate whether the organization has safeguards in place such as: 

  • Segregation of duties within financial processes 
  • Clear authorization thresholds for expenditures 
  • Independent review of bank reconciliations 
  • Written financial policies and procedures 
  • Conflict of interest disclosures 
  • Restricted fund tracking procedures 

Smaller nonprofits often face staffing limitations, but governance controls can still be implemented creatively. For example, board-level review of reconciliations or external oversight from an advisory partner can significantly reduce risk. 

Internal control strength directly affects audit outcomes and stakeholder confidence. 

Organize Documentation Throughout the Year

Audits are document-driven. The smoother the documentation process, the more efficient the audit. 

Boards should confirm that management maintains an organized, continuously updated “Prepared By Client” (PBC) file containing items such as: 

  • Monthly bank and investment reconciliations 
  • Grant agreements and compliance documentation 
  • Pledge receivable schedules with aging and roll-forward support 
  • Accounts payable aging and cutoff testing documentation 
  • Payroll records and tax filings 
  • Board meeting minutes and resolutions 
  • Lease schedules and related party disclosures 
  • Updated organizational charts and accounting policies 

Creating structured subfolders by financial statement area – cash, revenue, receivables, expenses, investments, endowments, fixed assets, and disclosures can significantly reduce fieldwork delays. 

The goal is to eliminate the year-end “paper chase.” 

Understand Nonprofit-Specific Audit Risks

Nonprofit audits differ from for-profit audits in several critical areas. Boards should ensure management is prepared to address: 

1. Revenue Recognition and Grant Compliance 

Auditors examine whether revenue is recognized in accordance with GAAP and donor-imposed restrictions. Conditional grants, multi-year pledges, and in-kind contributions require careful documentation. 

2. Net Asset Classification 

Proper classification of unrestricted, temporarily restricted, and permanently restricted funds is essential. Errors in net asset presentation often lead to audit adjustments. 

3. Cost Allocation 

Shared expenses must be allocated across programs, administration, and fundraising in a reasonable and documented manner. 

4. Compliance with Federal Uniform Guidance 

Organizations receiving significant federal funding may require a Single Audit. This includes compliance testing of federal program expenditures and internal control design. 

Proactive attention to these areas prevents avoidable audit findings. 

Planning the Audit as a Governance Project

Boards should treat the audit as a structured project with clear milestones. 

Effective audit planning includes: 

  • Scheduling opening and closing meetings with auditors 
  • Working backward from audit committee and board reporting dates 
  • Reviewing prior-year management letters and addressing unresolved findings 
  • Communicating new or unusual transactions early 
  • Holding periodic status meetings during fieldwork 

Consistent communication with auditors reduces misunderstandings and avoids last-minute surprises. Asking auditors to clarify the objective of documentation requests can also improve efficiency and reduce unnecessary workload. 

Leveraging Technology for Audit Efficiency

Modern audits increasingly rely on data analytics and secure document-sharing platforms. Boards should confirm that management: 

  • Uses accounting software capable of handling fund accounting 
  • Maintains reliable integrations (bank feeds, accounts payable/receivable systems) 
  • Standardizes data entry practices 
  • Protects donor and financial data appropriately 

Technology does not replace governance discipline, but it enhances transparency and reduces risk of manual error. 

Turning Audit Results into Strategic Insight

An audit should not end with the issuance of a report. 

Boards should carefully review: 

  • Any material weaknesses or significant deficiencies 
  • Proposed audit adjustments 
  • Recommendations in the management letter 
  • Trends compared to prior years 

Questions worth asking include: 

  • Were deficiencies previously identified and properly addressed? 
  • Do recurring adjustments indicate systemic control weaknesses? 
  • Are there opportunities to strengthen policies or documentation? 

The audit is an opportunity to improve systems, not merely confirm compliance. 

Organizations that already operate with disciplined financial oversight often find audits less disruptive. For example, nonprofits that maintain structured monthly reporting and financial strategy conversations, similar to the practices outlined in First 90 Days with an Outsourced Bookkeeping Team, typically enter audit season with fewer surprises. 

Creating a Year-Round Audit Mindset

The difference between a smooth audit and a chaotic one rarely lies in last-minute preparation. It lies in year-round discipline. 

Boards that emphasize: 

  • Timely monthly closings 
  • Consistent financial statement review 
  • Strong internal controls 
  • Organized documentation 
  • Proactive communication with auditors 

are far more likely to experience efficient audits and stronger stakeholder trust. 

At DWG CPA PLLC, we work with nonprofit leaders and boards to build this type of financial infrastructure. Audit readiness is not an afterthought, it is embedded into disciplined reporting, governance alignment, and structured internal controls throughout the year. 

Final Thoughts

A nonprofit audit is not a test to pass; it is a tool to strengthen governance and transparency. 

When boards actively engage in financial oversight, ensure structured documentation, and support strong internal controls, audits become confirmation exercises rather than crisis events. 

For nonprofit organizations committed to stewardship, audit readiness is not simply about compliance; it is about reinforcing trust in the mission.