Biz Tips | SVA Certified Public Accountants

How to Manage Federal Grants and Compliance

Written by Kirsten Houghton, CPA, MBA | Aug 20, 2026
Highlights:
  • Federal grant management requires coordinated oversight of budgets, program activities, payroll allocation, documentation, reporting, and compliance responsibilities across nonprofit teams.
  • Nonprofits can strengthen federal grant compliance by understanding Uniform Guidance, establishing internal controls, separating grant activity, and maintaining clear written policies.
  • Ongoing financial reviews and timely documentation help organizations identify issues early, prepare for audits, and support compliant, effective use of federal funding.

Federal grants can give nonprofit organizations the resources to expand programs, serve more people, and pursue new opportunities. They also come with detailed rules governing how funds are allowed to be spent.

Managing those requirements takes coordination across an organization. Finance teams may oversee budgets and expense documentation, while program leaders track performance and grant activity.

Human resources may be involved in payroll allocation, and leadership or the board may provide financial oversight. When these responsibilities aren’t clearly defined, compliance issues can develop even when everyone is acting in good faith.

A strong grant management process helps an organization use its funding as intended while remaining prepared for reporting, monitoring, or audit requests.

Start By Understanding the Award

Federal funding can take the form of a grant or a cooperative agreement. Both provide financial assistance for a public purpose, but a cooperative agreement generally involves more direct participation from the federal agency.

Funding may come directly from agencies such as the Department of Health and Human Services, Department of Education, Department of Housing and Urban Development, Department of Agriculture, or Department of Justice. It may also pass through a state agency, local government, or another nonprofit organization.

Before spending begins, the organization should review the entire award package. This includes the approved budget, grant period, program requirements, reporting deadlines, and any restrictions specific to the award.

Staff members involved with the grant should understand what the organization agreed to deliver, which expenses are permitted, and what records must be maintained. Relying only on the approved budget or a brief award summary can cause important requirements to be overlooked.

Become Familiar with Uniform Guidance

Many requirements related to federal awards are found in Uniform Guidance, also known as 2 CFR Part 200. Uniform Guidance establishes standards for areas such as financial management, internal controls, allowable costs, procurement, subrecipient oversight, audit requirements, and record retention.

Nonprofit organizations don’t need every employee to become an expert on the full regulation. However, employees with grant-related responsibilities should understand the sections that apply to their work.

For example, a program manager approving purchases should know that an expense must support the grant’s purpose and follow the organization’s policies. An employee charging time to a grant should understand the organization’s timekeeping process. Finance staff should know what supporting documentation is required before costs are recorded or reimbursed.

Training should be based on each person’s responsibilities rather than limited to the accounting department.

Establish Clear Internal Controls

Internal controls help reduce the risk of errors, unsupported costs, misuse of funds, and incomplete reporting. The controls used by a nonprofit organization should match the size and complexity of the organization, but they need to clearly address how grant activity is approved, recorded, reviewed, and reported.

Whenever possible, responsibilities should be divided among multiple people. The same employee shouldn’t be responsible for approving an expense, issuing payment, and reconciling the account. Smaller organizations may not have enough staff to fully separate every task, but they can add management or board review as a compensating control.

Written policies also give employees a consistent process to follow. Policies may address purchasing, expense approval, payroll allocation, travel, conflicts of interest, record retention, and subrecipient monitoring.

Those policies should reflect what the organization actually does. A detailed policy won’t provide much value if employees don’t understand it or follow a different process in day-to-day operations.

Track Grant Activity Separately

An organization should be able to identify the revenue, expenses, payroll, and other activity connected to each federal award. This may be handled through separate accounts, project codes, classes, or another tracking method within the accounting system.

Grant budgets should also be compared with actual results throughout the award period. Regular reviews can identify spending that is higher or lower than expected, expenses recorded to the wrong grant, or program changes that may require approval.

Waiting until the reporting deadline to review financial activity leaves less time to investigate discrepancies or gather missing documentation. Ongoing review gives the organization an opportunity to correct problems before they become larger issues.

Maintain Documentation as You Go

Federal grant compliance depends heavily on documentation. Organizations may need to support why an expense was charged to an award, who approved it, how it relates to the program, and whether it followed organizational and grant requirements.

Invoices, receipts, contracts, payroll records, approval documentation, reports, and correspondence should be retained in an organized manner. Records should also be accessible if the organization experiences staff turnover or receives a request years after the expense occurred.

Documentation created at the time of the transaction is more reliable than an explanation developed later. Building recordkeeping into the normal workflow can save considerable time during reporting periods, monitoring visits, or audits.

Make Compliance an Ongoing Process

Federal grant compliance isn’t a one-time review completed when the award is received. Requirements continue throughout the grant period and may extend beyond the final report.

Organizations should revisit grant activity regularly, update employees when requirements change, and address questions before funds are spent. Leadership should also receive enough information to understand the organization’s federal funding, financial performance, and compliance responsibilities.

Federal grants can create opportunities for nonprofit organizations, but they require disciplined oversight. By understanding the award, following Uniform Guidance, maintaining internal controls, tracking financial activity, and documenting decisions, organizations can build a grant management process that supports both compliance and long-term program success.

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