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Payroll Operations Manager Jobs in Boston, MA (NOW HIRING)

Medford Public Schools

Payroll Manager

Medford, MA · On-site

Payroll Manager Medford Public Schools Position Purpose Under the supervision of the Director of Finance, the Payroll Manager supports the management of the district's payroll operations including ...

Robert Half

Payroll Clerk

Boxborough, MA · On-site

$21.38 - $24.75/hr

... operations for a growing organization. This is a contract position offering part-time hours of approximately 20 to 25 per week, ideal for someone who can manage payroll activities accurately and ...

Addison Group

Payroll Administrator

Andover, MA · On-site

$24.75 - $33.50/hr

... operational and management reporting needs Help maintain payroll documentation and records in accordance with company policies and compliance requirements Assist with payroll-related general ledger ...

Addison Group

Payroll Administrator

Andover, MA · On-site

$24.75 - $33.50/hr

... operational and management reporting needs Help maintain payroll documentation and records in accordance with company policies and compliance requirements Assist with payroll-related general ledger ...

Ocular Therapeutix

Payroll Manager

Bedford, MA · On-site

$125K - $135K/yr

The Payroll Manager will be responsible for the accurate and timely processing of multi-state ... This role supports all aspects of payroll operations including salary, hourly, bonus, and equity ...

Rhythm Pharmaceuticals

Payroll Manager

Boston, MA · On-site

$110K - $165K/yr

... operations. The ideal candidate will have experience with ADP Workforce Now and a strong ... Manage and process U.S. multi-state regular bi-weekly payrolls for 270+ employees, using ADP ...

Rhythm Pharmaceuticals

Payroll Manager

Boston, MA · On-site

... operations. The ideal candidate will have experience with ADP Workforce Now and a strong ... Manage and process U.S. multi-state regular bi-weekly payrolls for 270+ employees, using ADP ...

Consigli Construction

Payroll Coordinator

Milford, MA · On-site

$61K - $74K/yr

Payroll Manager Supervisory Duties: No Salary Range: $61,000 - $74,000 The Payroll Coordinator is ... operations. This position plays a key role in supporting a smooth and compliant payroll process ...

Consigli Construction

Payroll Coordinator

Milford, MA · On-site

$61K - $74K/yr

Payroll Manager Supervisory Duties: No Salary Range: $61,000 - $74,000 The Payroll Coordinator is ... operations. This position plays a key role in supporting a smooth and compliant payroll process ...

Consigli Construction

Payroll Coordinator

Milford, MA · On-site

$61K - $74K/yr

Payroll Manager Supervisory Duties: No Salary Range: $61,000 - $74,000 The Payroll Coordinator is ... operations. This position plays a key role in supporting a smooth and compliant payroll process ...

Northeast Arc

Payroll Manager

Danvers, MA · On-site

$95K - $115K/yr

This role oversees all payroll operations, ensures adherence to federal, state, and local ... Manage end-to-end payroll processing, including calculation of wages, overtime, taxes, and ...

Northeast Arc

Payroll Manager

Danvers, MA · Hybrid

$95K - $115K/yr

This role oversees all payroll operations, ensures adherence to federal, state, and local ... Manage end-to-end payroll processing, including calculation of wages, overtime, taxes, and ...

Northeast Arc

Payroll Manager

Danvers, MA · Hybrid

$95K - $115K/yr

This role oversees all payroll operations, ensures adherence to federal, state, and local ... Manage end-to-end payroll processing, including calculation of wages, overtime, taxes, and ...

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Showing results 21-40

All JobsPayroll Operations JobsPayroll Operations Manager JobsPayroll Operations Manager Jobs in Boston, MA

Payroll Operations Manager information

See Boston, MA salary details

$45.6K

$97.1K

$144.5K

How much do payroll operations manager jobs pay per year?

As of Aug 9, 2026, the average yearly pay for payroll operations manager in Boston, MA is $97,115.00, according to ZipRecruiter salary data. Most workers in this role earn between $77,100.00 and $113,000.00 per year, depending on experience, location, and employer.

What are the key skills and qualifications needed to thrive as a payroll operations manager?

To thrive as a Payroll Operations Manager, you need expertise in payroll processing, compliance with labor laws, and a strong background in finance or accounting, often supported by a relevant degree. Familiarity with payroll software such as ADP, Workday, or SAP, as well as certifications like CPP (Certified Payroll Professional), is typically required. Strong leadership, problem-solving abilities, and attention to detail are crucial soft skills for managing teams and ensuring accuracy. These skills are vital to guarantee timely and compliant payroll operations, minimize errors, and lead an efficient payroll department.

What is the difference between Payroll Operations Manager vs Payroll Specialist?

AspectPayroll Operations ManagerPayroll Specialist
CredentialsTypically requires a bachelor’s degree in accounting, finance, or related field; payroll certifications preferredUsually requires a high school diploma or associate degree; payroll certifications beneficial
Work EnvironmentOversees payroll teams, manages processes, and ensures compliance across departmentsPerforms payroll processing, data entry, and verification tasks
Employer & Industry UsageCommon in medium to large organizations across various industriesFound in organizations of all sizes, often in HR or finance departments

The Payroll Operations Manager focuses on overseeing payroll processes, managing teams, and ensuring compliance, while the Payroll Specialist handles the day-to-day payroll data entry and processing tasks. Both roles require payroll knowledge, but the manager position involves leadership and strategic oversight.

What does a payroll operations manager do?

A payroll operations manager oversees the processing of employee compensation, ensuring accurate and timely payroll administration. They manage payroll systems, ensure compliance with tax laws and company policies, and coordinate with HR and finance teams to resolve payroll issues. Strong organizational skills and knowledge of payroll software are essential for this role.

What are some common challenges faced by payroll operations managers, and how can they be addressed?

Payroll Operations Managers often encounter challenges such as staying compliant with frequently changing tax laws, managing high volumes of data accurately, and ensuring timely payroll processing across multiple locations. To address these, it's important to implement robust payroll software, maintain ongoing training for staff, and establish strong internal controls. Effective communication with HR, finance, and external vendors also plays a crucial role in resolving discrepancies and maintaining smooth operations.

Is a payroll operations manager a stressful job?

A payroll operations manager role can be stressful due to the responsibility of ensuring accurate and timely employee payments, compliance with regulations, and managing payroll systems. The job often involves tight deadlines, attention to detail, and handling sensitive information, which can contribute to work-related stress.
What are popular job titles related to Payroll Operations Manager jobs in Boston, MA? For Payroll Operations Manager jobs in Boston, MA, the most frequently searched job titles are:
What job categories do people searching Payroll Operations Manager jobs in Boston, MA look for? The top searched job categories for Payroll Operations Manager jobs in Boston, MA are:
What cities near Boston, MA are hiring for Payroll Operations Manager jobs? Cities near Boston, MA with the most Payroll Operations Manager job openings:
Payroll Operations Manager jobs near you
Infographic showing various Payroll Operations Manager job openings in Boston, MA as of August 2026, with employment types broken down into 95% Full Time, and 5% Part Time. Highlights an 100% In-person job distribution, with an average salary of $97,115 per year, or $46.7 per hour.

Senior Manager, US Payroll

Alnylam Pharmaceuticals

Cambridge, MA • On-site

$133K - $180K/yr

Full-time

Medical, Dental, Vision, Life, Retirement, PTO

Posted 19 days ago

Job description

Overview
The Senior Manager, U.S. Payroll will own the end-to-end U.S. payroll function, ensuring accurate, compliant, and timely payroll processing for all U.S. employees. This role oversees the full payroll cycle, including data collection, processing, compliance, audits, vendor management, reporting, and system optimization. The ideal candidate is highly detail-oriented, thrives in a fast-paced environment, and brings the expertise to build scalable payroll processes for a growing organization.
This is a hybrid role primarily based in Cambridge, MA.
Key Responsibilities
  • Own and execute the end-to-end U.S. payroll process, ensuring accurate, compliant, and timely payroll delivery for all U.S. employees.
  • Review, validate, and reconcile payroll inputs, including new hires, terminations, compensation changes, bonuses, overtime, leaves, off-cycle payments, corrections, and year-end adjustments.
  • Administer time and attendance processes, ensuring accurate collection, validation, and processing of employee time data.
  • Ensure compliance with federal, state, and local payroll tax, wage and hour, garnishment, and labor regulations across all U.S. states of operation.
  • Lead payroll audits, maintain internal controls, support payroll tax filings and reconciliations, and stay current on regulatory changes impacting payroll operations.
  • Serve as the primary administrator and subject matter expert for payroll and timekeeping systems, partnering with HRIS, Finance, IT, and vendors to test, configure, optimize, and troubleshoot workflows.
  • Prepare payroll reporting, dashboards, GL files, labor costing, accruals, and audit materials for Finance, Accounting, HR, and other business partners.
  • Identify and implement process improvements, automation opportunities, documentation, SOPs, and best practices to support scalable payroll operations.
  • Partner cross-functionally with HR, Benefits, Finance, Accounting, Legal, IT, and business leaders to support merit cycles, bonus payouts, benefits open enrollment, organizational changes, and other payroll-related initiatives.
  • Act as the primary point of contact for payroll questions and escalations, providing clear communication and a positive employee experience related to payroll accuracy, policies, and pay-related changes.

Qualifications
  • 7-10+ years of progressive payroll experience, including at least 3 years managing high-volume U.S. payroll.
  • Experience owning end-to-end U.S. payroll in a stand-alone or sole-owner capacity.
  • Strong knowledge of federal, state, and local payroll laws, payroll taxation, wage and hour regulations, and multi-state compliance requirements.
  • Hands-on experience with major payroll and timekeeping systems, preferably ADP and Workforce.
  • Advanced Excel or Google Sheets skills, including pivot tables, lookups, reconciliations, and payroll reporting.
  • Experience preparing GL files, supporting audits, and partnering closely with Accounting, Finance, HR, and Benefits.
  • High attention to detail, strong problem-solving skills, discretion with confidential information, and a commitment to a positive employee experience.
  • Experience with international payroll processes preferred.

#LI- MH1 #LI-Hybrid
U.S. Pay Range
$133,500.00 - $180,600.00
The pay range reflects the full-time base salary range we expect to pay for this role at the time of posting. Base pay will be determined based on a number of factors including, but not limited to, relevant experience, skills, and education. This role is eligible for an annual short-term incentive award (e.g., bonus or sales incentive) and an annual long-term incentive award (e.g., equity).
Alnylam's robust Total Rewards package is designed to support your overall health and well-being. We offer comprehensive benefits including medical, dental, and vision coverage, life and disability insurance, a lifestyle reimbursement program, flexible spending and health savings accounts and a 401(k)with a generous company match. Eligible employees enjoy paid time off, wellness days, holidays, and two company-wide recharge breaks. We also offer generous family resources and leave. Our commitment to your well-being reflects our belief that caring for our people fuels the impact we create together.
Learn more about these and additional benefits offered by Alnylam by visiting the Benefits section of the Careers website: https://www.alnylam.com/careers
About Alnylam
We are the leader in RNAi therapeutics - a revolutionary approach with the potential to transform the lives of people with rare and common diseases. Built on Nobel Prize-winning science, Alnylam has delivered the breakthroughs that made RNAi therapeutics possible and are just at the beginning of what's possible. Our deep pipeline, late-stage programs, and bold vision reflect our core values: fierce innovation, passion for excellence, purposeful urgency, open culture and commitment to people. We're proud to be a globally recognized top employer, where an authentic, inclusive culture and breakthrough thinking fuel one another.
At Alnylam, we commit to an inclusive recruitment process and equal employment opportunity. Qualified applicants will receive consideration for employment without regard to their sex, gender or gender identity, sexual orientation, race, color, ethnicity, national origin, ancestry, citizenship, religion, creed, physical or mental disability, pregnancy status or related conditions, genetic information, veteran or military status, marital or familial status, political affiliation, age, or any other factor protected by federal, state, or local law. Alnylam is an E-Verify Employer.

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