Payroll software for nonprofit organizations

All programs, one payroll run.

Manage split-funded positions and stipends in one place, then run audit-ready payroll.

Best Small Business Payroll 2025

Best Payroll for Hourly Teams 2024

Best Payroll for Small Business 2024

Best payroll for hourly teams

Best payrollfor automation

Best payroll for small business

Made for hourly teams

Payroll that respects your mission and your budget.

Track program staff and volunteers, handle grant-funded positions, run payroll—all in one affordable system built for nonprofits.

Track hours by program and grant in one place

Assign staff time to specific programs, generate funder reports, prove grant compliance—automatically built in.

Track volunteer hours and pay program coordinators—once

Volunteers clock in for reporting, paid staff clock in for payroll—both tracked seamlessly through the same interface.

Stay audit-ready with automatic record storage

Timecard records, tax filings, payment histories—stored and organized automatically for when auditors or funders ask.

All-in-one nonprofit payroll

Homebase syncs scheduling, time tracking, and payroll so you track labor costs by grant—not spreadsheets.

Schedule field workers with geolocation tracking—hours flow to payroll tagged by grant or program.
Pay staff in one run while tracking time across grants—automatic W-2s at year-end.
Calculate, file, and deposit all payroll taxes automatically—pass audits without scrambling for records.

Grant-Compliant Payroll Reporting

Homebase tracks time by location, role, and project so you report labor to grantors—no spreadsheets.

Assign staff to programs when scheduling, then pull reports by grant period—audit-ready documentation without manual allocation.
Set multiple pay rates for different roles—case manager, outreach coordinator—and Homebase applies the right rate automatically.
Run payroll as often as needed for one flat rate—weekly for direct service staff, bi-weekly for admin—no per-run charges.

Run payroll for nonprofit in four simple steps.

Build schedules, track time, and pay your team—all connected so nothing falls through the cracks.