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Internal Controls Manager Jobs in Rochester, NY (NOW HIRING)

Pronexus, LLC

Accounting Manager

Pittsford, NY · On-site

$38 - $45/hr

Accounting Managers collaborate with management teams to optimize accounting processes, strengthen internal controls, and support strategic decision-making. Key Responsibilities: * Financial ...

Five Star Bank

Internal Auditor I

Rochester, NY · On-site

$64K - $70K/yr

Internal Audit Manager Department: Internal Audit FLSA Status: Exempt Purpose : The Internal ... Performs tests of operating effectiveness on the Company's system of internal controls; * Evaluates ...

Paychex

Manager, Corporate Accounting

Rochester, NY · On-site

$115K - $130K/yr

Maintains an adequate system of internal controls in the financial reporting process ... Owns and manages ad hoc project requests and teams; motivates and drives project teams forward ...

O'Connell Electric Company

Accounting Manager

Victor, NY · On-site

$95K - $120K/yr

Accounting Manager The Accounting Manager is responsible for overseeing the company's accounting ... Establish, maintain, and strengthen internal controls, accounting policies, and financial ...

O'Connell Electric Company

Accounting Manager

Victor, NY · On-site

$95K - $120K/yr

Accounting Manager The Accounting Manager is responsible for overseeing the company's accounting ... Establish, maintain, and strengthen internal controls, accounting policies, and financial ...

Bonadio

Senior Internal Auditor

Rochester, NY · On-site

$85K/yr

... that internal controls provide adequate safeguards, to ensure the client's general operating ... Ability to effectively present information to top management, public meetings, and/or boards of ...

Bonadio

Senior Internal Auditor

Rochester, NY · On-site

$85K/yr

... that internal controls provide adequate safeguards, to ensure the client's general operating ... Ability to effectively present information to top management, public meetings, and/or boards of ...

Bonadio

Senior Internal Auditor

Rochester, NY · On-site

$85K/yr

... that internal controls provide adequate safeguards, to ensure the client's general operating ... Ability to effectively present information to top management, public meetings, and/or boards of ...

The Bonadio Group

Senior Internal Auditor

Rochester, NY · On-site

$85K/yr

... that internal controls provide adequate safeguards, to ensure the client's general operating ... Ability to effectively present information to top management, public meetings, and/or boards of ...

Paychex

Manager, Corporate Accounting

Rochester, NY · On-site

$115K - $130K/yr

Maintains an adequate system of internal controls in the financial reporting process ... Owns and manages ad hoc project requests and teams; motivates and drives project teams forward ...

Bonadio Group

Senior Internal Auditor

Rochester, NY · On-site

$70 - $85/hr

... that internal controls provide adequate safeguards, to ensure the client's general operating ... Ability to effectively present information to top management, public meetings, and/or boards of ...

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Internal Controls Manager information

See Rochester, NY salary details

$77K

$131.9K

$168.2K

How much do internal controls manager jobs pay per year?

As of Sep 4, 2026, the average yearly pay for internal controls manager in Rochester, NY is $131,877.00, according to ZipRecruiter salary data. Most workers in this role earn between $99,700.00 and $167,700.00 per year, depending on experience, location, and employer.

What does an internal controls manager do?

An Internal Controls Manager is responsible for designing, implementing, and monitoring a company's internal control systems to ensure compliance with regulations and mitigate risks. They assess financial and operational processes, identify control weaknesses, and recommend improvements. Additionally, they collaborate with various departments to ensure policies and procedures are followed and assist in audits. Their role helps safeguard company assets, enhance efficiency, and maintain financial integrity.

What are the typical challenges faced by an internal controls manager, and how can they be addressed?

Internal Controls Managers often face challenges such as keeping up with evolving regulatory requirements, balancing multiple audit projects, and ensuring organization-wide compliance across diverse departments. To address these difficulties, it’s crucial to stay current with relevant industry standards, leverage modern audit and control tools, and foster open communication with all stakeholders. Building strong relationships with operational teams and management helps streamline the implementation of controls and encourages a culture of compliance. Proactively addressing these challenges can lead to more efficient processes, reduced risks, and increased organizational value.

What are the key skills and qualifications needed to thrive as an internal controls manager, and why are they important?

To thrive as an Internal Controls Manager, you need a solid background in accounting, auditing, and risk management, typically supported by a degree in finance or a related field and relevant certifications such as CPA, CIA, or CISA. Familiarity with ERP systems (e.g., SAP, Oracle), audit management software, and data analytics tools is often required. Strong analytical thinking, attention to detail, and effective communication are standout soft skills for this role. Mastery of these skills ensures robust controls, regulatory compliance, and the ability to influence cross-functional teams toward improved organizational processes.

What are the most commonly searched types of Internal Controls jobs in Rochester, NY?

The most popular types of Internal Controls jobs in Rochester, NY are:

What are popular job titles related to Internal Controls Manager jobs in Rochester, NY?

For Internal Controls Manager jobs in Rochester, NY, the most frequently searched job titles are:

What job categories do people searching Internal Controls Manager jobs in Rochester, NY look for?

The top searched job categories for Internal Controls Manager jobs in Rochester, NY are:

What cities near Rochester, NY are hiring for Internal Controls Manager jobs?

Cities near Rochester, NY with the most Internal Controls Manager job openings:

Internal Controls Manager jobs near you
Infographic showing various Internal Controls Manager job openings in Rochester, NY as of August 2026, with employment types broken down into 89% Full Time, 10% Part Time, and 1% Contract. Highlights an 87% Physical, 2% Hybrid, and 11% Remote job distribution, with an average salary of $131,877 per year, or $63.4 per hour.

Internal Audit Coordinator

TRILLIUM HEALTH INC

Rochester, NY • On-site

$22.56 - $32.49/hr

Full-time

Re-posted 22 hours ago

Key responsibilities

  • Assist the Compliance Audit & Risk Manager with planning, executing, and reporting on internal audits.

  • Conduct audits to evaluate compliance with policies, regulations, and grant requirements, and prepare audit reports.

  • Monitor implementation of corrective action plans and identify opportunities for process improvements.

Job description

Job Title: Internal Audit Coordinator 

Department: Compliance

Position Type: Full-Time

FLSA: Non-Exempt


Job Summary: 

Internal Audit Coordinator will be responsible to assisting the Compliance Audit & Risk Manager with the implementation of the Organizations Audit Workplan, by coordinating internal audit activities.  Responsible for working with various departments to ensure compliance with internal policies, regulations including grant requirements. This role will involve planning, executing and reporting on internal audits, identifying areas of improvement, and providing recommendations for enhancing operational efficiency and compliance.  


Duties/Responsibilities: 

  • Monitor and assess compliance with FQHC guidelines, regulations, and reporting requirements. 
  • Conduct audits to ensure that programs and services (including grant-funded) adhere to established policies and procedures. 
  • Work with Compliance Audit & Risk Manager in developing an annual audit workplan based on previous audit findings (internal & external), risk assessments and organizational priorities. 
  • Implement audit work plan by completing internal audits to evaluate the effectiveness of internal controls and program operations. 
  • Attend Monitoring visit entrance/exit meetings and provide updates to Compliance Audit & Risk Manager on visit findings. 
  • Assist with ensuring timely submission of Corrective Action Plans for site visit findings and monitor implementation of those plans to ensure follow-through and completion. 
  • Maintain comprehensive and organized audit documentation. 
  • Prepare detailed audit reports, highlighting findings and recommendations. 
  • Communicate audit results to relevant stakeholders, including department heads and grant managers. 
  • Work with program management to review corrective action plans and monitor the status of all corrective actions plans until fully resolved. 
  • Identify opportunities for process improvements and efficiency enhancements including within the grant funded programs. 
  • Recommend corrective actions to address identified weaknesses and enhance overall compliance performance. 
  • Work with management to monitor the effectiveness of implemented corrective action plans. 
  • Support program management by providing support and guidance on grant compliance matters.

  • Stay informed about changes in regulations and industry best practices including grant management and internal auditing.

 

Miscellaneous:

  • Requires the ability and commitment to respect and support patients, other employees and visitors with various lived experiences.
  • Requires individual demonstration of commitment to the mission, vision, One Trillium values, behaviors and modeling them in the organization.
  • Responsible for maintaining confidentiality of all patient, client, employee, protected and proprietary information.
  • Employees are accountable for meeting the performance standards of their departments and must participate as requested in compliance audits and quality improvement plans.
  • Required to participate in continuous improvement of job responsibilities and organizational or work processes to advance the organization or department. 
  • Other specific duties as assigned.



Education and Experience: 

  • Minimum of 2 years' experience auditing in a healthcare setting. 
  • Regulatory compliance knowledge such as HIPAA, compliance, audit, etc. 
  • FQHC experience preferred. 

 


Physical Requirements: 


While performing the duties of this job, the employee is required to stand, sit, walk, use hands to finger, handle, or feel; reach with hands and arms; talk; and hear. Occasionally the employee must stoop, bend, and lift or move up to 25 lbs. Vision requirements include close vision, distance vision, peripheral vision, depth perception, and ability to adjust focus.


In support of the Americans with Disabilities Act, this job description lists only those responsibilities and qualifications deemed essential to the position.