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Manager Nonprofit Controller Jobs (NOW HIRING)

CFS

Controller (Non-Profit)

Indianapolis, IN · Hybrid

$95K - $120K/yr

Manage budgeting, forecasting, and variance analysis in collaboration with leadership * Oversee ... nonprofit accounting, including fund and grant accounting * Prior experience in a controller ...

CFS

Controller (Non-Profit)

Indianapolis, IN · Hybrid

$95K - $120K/yr

Manage budgeting, forecasting, and variance analysis in collaboration with leadership * Oversee ... nonprofit accounting, including fund and grant accounting * Prior experience in a controller ...

CFS

Controller (Non-Profit)

Indianapolis, IN · Hybrid

$95K - $120K/yr

Manage budgeting, forecasting, and variance analysis in collaboration with leadership * Oversee ... nonprofit accounting, including fund and grant accounting * Prior experience in a controller ...

CFS

Controller (Non-Profit)

Indianapolis, IN · Hybrid

$95K - $120K/yr

Manage budgeting, forecasting, and variance analysis in collaboration with leadership * Oversee ... nonprofit accounting, including fund and grant accounting * Prior experience in a controller ...

CFS

Controller (Non-Profit)

Indianapolis, IN · Hybrid

$95K - $120K/yr

Manage budgeting, forecasting, and variance analysis in collaboration with leadership * Oversee ... nonprofit accounting, including fund and grant accounting * Prior experience in a controller ...

CFS

Controller (Non-Profit)

Indianapolis, IN · Hybrid

$95K - $120K/yr

Manage budgeting, forecasting, and variance analysis in collaboration with leadership * Oversee ... nonprofit accounting, including fund and grant accounting * Prior experience in a controller ...

CFS

Controller (Non-Profit)

Indianapolis, IN · Hybrid

$95K - $120K/yr

Manage budgeting, forecasting, and variance analysis in collaboration with leadership * Oversee ... nonprofit accounting, including fund and grant accounting * Prior experience in a controller ...

CFS

Controller (Non-Profit)

Indianapolis, IN · Hybrid

$95K - $120K/yr

Manage budgeting, forecasting, and variance analysis in collaboration with leadership * Oversee ... nonprofit accounting, including fund and grant accounting * Prior experience in a controller ...

CFS

Controller- Nonprofit

Boston, MA · Hybrid

... Manage and develop the finance team, including hiring, training, and performance management • Support annual budgeting process and partner with internal teams on program budgets and forecasting • ...

CFS

Controller- Nonprofit

Boston, MA · Hybrid

... Manage and develop the finance team, including hiring, training, and performance management • Support annual budgeting process and partner with internal teams on program budgets and forecasting • ...

GHJ

Controller - Nonprofit Organization

Los Angeles, CA

$150K - $177K/yr

The Controller manages day-to-day accounting functions and helps ensure compliance with nonprofit accounting standards, grant requirements, and applicable laws and regulations. Responsibilities ...

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How much do manager nonprofit controller jobs pay per year?

As of May 30, 2026, the average yearly pay for manager nonprofit controller in the United States is $55,952.00, according to ZipRecruiter salary data. Most workers in this role earn between $38,000.00 and $60,000.00 per year, depending on experience, location, and employer.

What are the key skills and qualifications needed to thrive as a Manager Nonprofit Controller, and why are they important?

To thrive as a Manager Nonprofit Controller, you need expertise in nonprofit accounting, financial reporting, and budgeting, generally supported by a bachelor’s degree in accounting or finance and relevant experience. Familiarity with accounting software such as QuickBooks Nonprofit, Blackbaud, or Sage Intacct, and often a CPA certification, is highly valued. Strong leadership, attention to detail, and effective communication skills set top candidates apart in this role. These skills ensure accurate financial oversight, compliance with nonprofit regulations, and sound decision-making to support the organization’s mission.

How does a Manager Nonprofit Controller typically collaborate with program and development teams within an organization?

A Manager Nonprofit Controller works closely with program and development teams to ensure that financial planning, budgeting, and reporting align with the organization's mission and fundraising goals. They provide financial insights to help evaluate program effectiveness and support grant compliance by tracking restricted funds and reporting requirements. Regular meetings and open communication are common, fostering a collaborative environment where financial and programmatic objectives are synchronized for optimal impact.

What is a Manager Nonprofit Controller?

A Manager Nonprofit Controller is a financial leader responsible for overseeing the accounting and financial reporting functions of a nonprofit organization. They ensure compliance with accounting standards and regulatory requirements specific to nonprofits, manage budgets, prepare financial statements, and may oversee audits. Additionally, they work closely with executive leadership to inform financial strategy, monitor grant funding, and support the organization's mission through sound fiscal management.

What is the difference between Manager Nonprofit Controller vs Bookkeeper?

AspectManager Nonprofit ControllerBookkeeper
CredentialsAccounting degree, CPA preferredHigh school diploma or equivalent
ResponsibilitiesFinancial oversight, budgeting, financial reportingRecording transactions, maintaining ledgers
Work EnvironmentNonprofit organizations, finance departmentsAccounting firms, small nonprofits
Industry UsageCommon in nonprofit sectorWidespread across industries

The Manager Nonprofit Controller oversees financial management, budgeting, and reporting within nonprofit organizations, requiring advanced accounting skills and certifications. In contrast, a Bookkeeper handles day-to-day transaction recording with less emphasis on strategic financial planning. The Controller role is more senior and analytical, while Bookkeeping is more operational and clerical.

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Manager Nonprofit Controller jobs near you

Controller (Non-Profit)

CFS

Indianapolis, IN • Hybrid

$95K - $120K/yr

Full-time

Posted 15 days ago

Job description

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Controller (Non‑Profit)

Indianapolis, IN
Hybrid schedule (up to 2 days work from home)
$95,000 – $120,000 base salary (flexible based on experience and nonprofit complexity)

A mission‑driven organization in the Indianapolis area is seeking a Controller to lead accounting operations and ensure financial integrity in support of organizational goals. This role is ideal for an experienced accounting professional with nonprofit experience who enjoys blending hands‑on accounting with leadership, oversight, and strategic collaboration.

The Controller will play a key role in financial reporting, compliance, and process improvement while partnering closely with leadership to support transparency and stewardship of funds.

Key Responsibilities
  • Oversee all accounting operations, including general ledger, month‑end close, and financial reporting
  • Prepare and review monthly, quarterly, and annual financial statements
  • Ensure compliance with nonprofit accounting standards, including GAAP and fund accounting
  • Manage budgeting, forecasting, and variance analysis in collaboration with leadership
  • Oversee grant tracking, restricted funds, and donor‑related reporting
  • Coordinate annual audits and serve as the primary point of contact for external auditors
  • Maintain and strengthen internal controls and accounting policies
  • Lead and develop accounting staff; provide guidance, training, and oversight
  • Support process improvements and system efficiencies within the accounting function
Qualifications
  • Bachelor’s degree in Accounting, Finance, or related field (required)
  • 5–10+ years of progressive accounting experience, ideally within a nonprofit organization
  • Strong knowledge of nonprofit accounting, including fund and grant accounting
  • Prior experience in a controller, assistant controller, or accounting manager role
  • Experience managing or mentoring accounting staff
  • Strong understanding of internal controls and audit processes
  • Proficiency with accounting systems and Excel
  • CPA preferred but not required
Compensation & Opportunity
  • Base salary range of $95K–$120K, depending on experience
  • Hybrid work environment with remote flexibility
  • High‑impact leadership role supporting a mission‑driven organization
  • Opportunity to influence financial strategy and operational improvements
  • Stable organization with long‑term growth and visibility

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