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Nonprofit Controller Jobs in Rochester, NY (NOW HIRING)

Memorial Hermann

Life Flight Pilot

Pavilion, NY · On-site

As non-profit hospital-based program, all aviation and medical employees work directly for Memorial ... controllers. * Inspects all major mechanical, operational, and control systems, as well as all ...

Lollypop Farm

Medical Director

Fairport, NY · On-site

$170K - $180K/yr

As a registered 501(c)(3) nonprofit organization, eligible full-time employees may qualify for the ... Adhere to DEA requirements, state regulations and organization policies for controlled drugs.

All JobsNonprofit Controller JobsNonprofit Controller Jobs in Rochester, NY

Nonprofit Controller information

See Rochester, NY salary details

$54.3K

$117.9K

$173.2K

How much do nonprofit controller jobs pay per year?

As of Jul 27, 2026, the average yearly pay for nonprofit controller in Rochester, NY is $117,904.00, according to ZipRecruiter salary data. Most workers in this role earn between $95,700.00 and $136,700.00 per year, depending on experience, location, and employer.

How does a Nonprofit Controller typically collaborate with program managers and development teams?

As a Nonprofit Controller, you will regularly work with program managers and development teams to ensure proper allocation of funds and compliance with grant requirements. This collaboration often involves budget planning, financial reporting, and providing guidance on allowable expenses. Open communication is key, as you'll help translate financial data into actionable insights that support program objectives and fundraising efforts. Building strong relationships with these teams is essential for accurate financial tracking and organizational success.

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

To thrive as a Nonprofit Controller, you need strong expertise in nonprofit accounting, financial analysis, and compliance, usually supported by a bachelor’s degree in accounting or finance and often a CPA certification. Familiarity with fund accounting software such as QuickBooks Nonprofit, Sage Intacct, or Blackbaud Financial Edge is typically required. Exceptional attention to detail, integrity, and strong communication skills help build trust and facilitate collaboration across departments. These skills are crucial for maintaining financial transparency, ensuring regulatory compliance, and supporting the organization's mission-driven goals.

What is a Nonprofit Controller?

A Nonprofit Controller is a senior financial professional responsible for managing the accounting, financial reporting, budgeting, and compliance functions within a nonprofit organization. They ensure that all financial practices adhere to regulatory standards and support the organization’s mission. Nonprofit Controllers oversee the preparation of financial statements, manage audits, and often supervise accounting staff. Their work helps maintain transparency and accountability in the organization’s use of funds.

What Does a Nonprofit Controller Do?

A nonprofit controller manages accounting operations for a charitable organization. In this career, you oversee the collection of data and information for use in financial statement reports. You supervise budget planning. You coordinate both internal and external audit processes and make operational adjustments based on the results of those audits. As a controller, you have hiring and training responsibilities in addition to your operational management duties. You select new employees and make sure they receive proper training, and you ensure that your employees account for all necessary information that you use for reporting and financial summaries for donors and regulatory authorities.

What is the difference between Nonprofit Controller vs Nonprofit Accountant?

AspectNonprofit ControllerNonprofit Accountant
CredentialsCPA or equivalent, financial management experienceAccounting degree or certification, entry to mid-level experience
Work EnvironmentOversees financial operations, manages staff, strategic planningHandles day-to-day bookkeeping, reconciliations, and reporting
Employer & Industry UsageNonprofit organizations, foundations, charitiesNonprofits, small organizations, community groups
Search & Comparison IntentHigher-level financial management rolesEntry to mid-level accounting roles

The Nonprofit Controller typically holds a CPA and manages the organization's financial strategy, staff, and compliance. In contrast, a Nonprofit Accountant focuses on routine bookkeeping and financial reporting. While both roles require accounting skills, the Controller's position is more strategic and supervisory, making it suitable for those with more experience and credentials.

More about Nonprofit Controller jobs
What are the most commonly searched types of Nonprofit Controller jobs in Rochester, NY? The most popular types of Nonprofit Controller jobs in Rochester, NY are:
What are popular job titles related to Nonprofit Controller jobs in Rochester, NY? For Nonprofit Controller jobs in Rochester, NY, the most frequently searched job titles are:
What job categories do people searching Nonprofit Controller jobs in Rochester, NY look for? The top searched job categories for Nonprofit Controller jobs in Rochester, NY are:
What cities near Rochester, NY are hiring for Nonprofit Controller jobs? Cities near Rochester, NY with the most Nonprofit Controller job openings:
Nonprofit Controller jobs near you
Infographic showing various Nonprofit Controller job openings in Rochester, NY as of July 2026, with employment types broken down into 62% Full Time, and 38% Part Time. Highlights an 75% In-person, and 25% Hybrid job distribution, with an average salary of $117,904 per year, or $56.7 per hour.
Assistant Controller - (Senior Accounting Consultant)

Assistant Controller - (Senior Accounting Consultant)

Insero & Co. CPAs, LLP

Rochester, NY • Hybrid

$72K - $95K/yr

Full-time

Retirement, PTO

Posted 17 days ago

Job description

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Assistant Controller (CAS Senior Accountant\/Supervisor)<\/b>
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Rochester, NY | Full\-Time or Part\-Time
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Join Insero's Client Accounting Services (CAS) team and enjoy meaningful client work, schedule flexibility, and a variety of projects supporting a variety of organizations. If you want a role where every day looks different-and your expertise has real impact-this is it.
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Client Accounting Services: <\/b>Our Client Accounting Services Group has been around for over 20 years and is made up of dedicated personnel whose only assignments are supporting our client base. We are full\-time CPAs, CMAs, Accountants and Business Managers. We understand the issues that Controllers and CFOs face every day - and our technology, experience and flexibility add real value. Accounting Consulting for us is not something that fills our downtime; it is our focus all year long. Our services range from bookkeeping to budgeting and forecasting. Our Client Accounting Services Team ensures our clients have the information and advice they require to run their business\/organization.
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What You'll Do<\/b>
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  • Lead\/support fullaccrual monthend close, journal entries, reconciliations, A\/P, A\/R, payroll, and financial reporting.
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  • Analyze and clean up general ledger activity to ensure accuracy.
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  • Assist with cash flow, disclosures, budgeting, and annual planning.
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  • Communicate directly with clients and coordinate with auditors and external partners.
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  • Improve processes, strengthen internal controls, and help upgrade or implement accounting systems.
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  • Supervise staff as needed.
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    Requirements<\/h3>

    What You Bring<\/b>
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    • Associate's in Accounting required; Bachelor's preferred.
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    • 4+ years accounting experience with nonprofit exposure (industry or public).
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    • Strong monthend close and reconciliation skills.
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    • Experience with QuickBooks Online, Intacct, and Bill.com strongly preferred.
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    • Excellent communication, client service mindset, and the ability to manage multiple engagements.
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    • CPA\/CMA a plus.
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      Compensation<\/b>
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      $72,000-$95,000 base salary, depending on experience. Additional discretionary bonus opportunities available.
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      Benefits<\/h3>

      Why Insero<\/b>
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      • 4-5 weeks PTO + 16 paid holidays
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      • Remote\/hybrid flexibility
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      • 401(k) with firm contributions
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      • Tuition reimbursement program
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      • Robust benefits offerings
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      • Spot bonuses, CPA bonus, training & technology investment
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      • Ranked the #1 Best Company <\/span><\/b>to Work For in New York in the Medium Companies category (State, NYS\-SHRM and Best Companies Group) 2025 & 2024, ranked #3 in 2023 and again #1 in 2022.<\/span><\/b><\/span>
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      • Best Accounting Firms to Work For (National, Accounting Today and Best Companies Group) 2012\-2025.<\/span>
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      • #1 Best Accounting Firm, Reader Rankings (Local, Rochester Business Journal) 2023\-2026, consistently ranked since joining<\/span><\/b><\/i> <\/span><\/b>in 2018.<\/span>
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        At Insero, we believe in being passionate about people, delivering excellence, growing to new heights, and going further together. If these values resonate with you, we encourage you to apply!
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        Insero is an Equal Opportunity Employer.
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