Accounting & Contract Compliance Manager

Mission Edge; San Diego (CA); On-site; USD 80,000 - 95,000; Full time

Benefits offered by this job

Health Premiums company paid

Dental & Vision company paid

Flexible Spending Accounts

Generous paid time off

403(b) Retirement Employer Match up to 5%

Employee Assistance Program

Job summary

A nonprofit organization in San Diego is seeking an Accounting & Contract Compliance Manager to oversee financial accountability across multiple contracts and grants. This role entails managing documentation for compliance and operational support, as well as ensuring adherence to accounting standards. An ideal candidate will have a bachelor’s degree in Accounting or Finance and significant nonprofit accounting experience. The position comes with a competitive salary and a generous benefits package, including health insurance and matching retirement plans.

Qualifications

• Bachelor’s degree required; 3–5 years of nonprofit accounting experience preferred.
• Familiar with federal grant compliance and strong knowledge of GAAP.
• Experience with accounting software essential.

Responsibilities

• Track spending on contracts and ensure cost compliance.
• Collaborate with program managers to manage budgets.
• Prepare financial reports for funders and leadership.

Skills

Nonprofit accounting experience

Knowledge of GAAP

Advanced Excel skills

Interpersonal and communication skills

Attention to detail

Education

Bachelor’s degree in Accounting, Finance, or related field

Tools

Accounting software (NetSuite, MIP, etc.)

Job description

Position Title: Accounting & Contract Compliance Manager

Department: Administrative

Report to: Sr. Director of Finance & Operations

Salary Range: $80,000 - $95,000 per year

Location: Residential Facility

Type: Full Time, Exempt

Position Summary

The Accounting & Contract Compliance Manager works onsite at the Residential Facility and is a key member of our finance team, responsible for ensuring fiscal accountability across all contracts and grants while maintaining accurate and timely financial records. This dual-function role supports both funder compliance and core accounting activities and plays a vital role in audit readiness, internal controls, and financial reporting.

Essential Functions

Contract Accounting & Grant Compliance

• Track and monitor spending on federal, state, and local contracts (e.g., SAMHSA, HOPWA, Ryan White, DHCS, County of San Diego)
• Ensure costs are allowable, allocable, and reasonable in compliance with funder regulations
• Maintain documentation for grant reporting and reimbursement requests
• Collaborate with program managers to align spending with budgets
• Assist with the preparation and timely financial reports to funders and leadership
• Ensure organization is following federal, state, and local contract employee training requirements including working with staff to obtain necessary training/certifications
• Assist in timely and accurate filing of monthly, quarterly, and annual programmatic reports to funders and regulators
• Collaborate with auditors for workers’ compensation, payroll, as well as In-Depth Invoice Reviews and site visits
• Assist in preparation of monthly and quarterly financial statements
• Support annual independent audit and federal Single Audit (2 CFR Part 200)
• Assist in overseeing overall grant management and success, contract execution, and budget and contract amendments

Internal Controls & Process Improvement

• Assist with policies and procedures remain current with changing government and funding regulations
• Help develop and enforce accounting policies and procedures
• Monitor internal controls and recommend enhancements
• Manage agency-wide information technology, including working with the contracted Managed Services IT vendor as well as maintaining employee training platforms (RELIAS and Paylocity)
• Assist with payroll journal entries and cost allocations

Operational Support

• Assist with preparation, tracking, and submission of expense reports, reimbursement requests, and related supporting documentation
• Supports leadership with document preparation, meeting materials, and other administrative tasks to advance departmental and organizational priorities
• Maintain organized records, files and administrative systems related to operational, bill, and leadership support functions

Minimum Qualifications

• Bachelor’s degree in Accounting, Finance, or related field
• Minimum 3–5 years of nonprofit accounting experience
• Familiarity with federal grant compliance (2 CFR Part 200, OMB Uniform Guidance)
• Strong knowledge of GAAP
• Experience with accounting software (e.g., NetSuite, MIP, or similar)
• Advanced Excel skills (pivot tables, vlookup, etc.)
• Excellent attention to detail and organizational skills
• Current CPR/First Aid Certification (or within 90 days of hire)
• Strong interpersonal and communication skills, with the ability to instruct and guide trainees of varying skill levels
• Successful completion of a criminal background check

Environmental Factors And Conditions/ Physical Requirements

• Work primarily in a climate controlled environment with minimal safety/health hazard potential
• Office environment, exposure to computer screens for lengthy periods of time
• May require occasional evening and weekend work
• This position may occasionally lift and/or move more than 25 pounds

Benefits Package

Stepping Stone is proud to offer a generous benefits package for full-time employees, representing the potential additional $10,000+ on average per full-time employee above base pay, including but not limited to:

• Health Premiums company paid, including Acupuncture and Chiropractic
• Dental & Vision company paid
• Flexible Spending Accounts (Health Care & Dependent Care)
• Generous paid time off – sick & vacation
• Employee Assistance Program
• 403(b) Retirement Employer Match up to 5%
• 15 Paid Holidays, including floating holidays
• Life/AD&D Insurance company paid
• Long Term Disability Insurance company paid