Key Takeaways
- ✔OnTheClock is the top pick for small nonprofits: $4 per employee per month plus a $5 base fee, a 30% nonprofit discount, and a 30-day free trial.
- ✔The best tool captures every hour accurately and affordably, so payroll is right and grant-funded hours hold up.
- ✔No single tool wins for everyone. The right pick changes with your budget, your staff, and whether your people work onsite or in the field.
- ✔Free options exist. Jibble is free for unlimited users; Homebase is free for one location.
- ✔Many hourly nonprofit employees are covered by federal wage and hour rules, so keep accurate time records for nonexempt staff.
The best time clock software for a nonprofit captures every hour accurately, costs little, and holds up when payroll runs and when a funder asks where the hours went. Federal labor law already requires you to keep those hourly records for at least two years, so the tool has to get them right the first time.
Picture the end of a pay period at a small nonprofit. You've got hourly staff, a few part-timers, and someone whose salary is split between a state grant and your general fund. Their punches live in three places. Payroll is due Friday, every dollar is already promised to a program, and one wrong number means a report you'll have to fix later. A clock that can't keep those hours straight turns a 20-minute task into a lost afternoon.
So the "best" pick depends on what bites hardest for you: price, simplicity, field staff, or payroll. Below, we break down the best time clock software for nonprofits by the situation you're actually in.
What Nonprofits Actually Want
Nonprofits aren't chasing the longest feature list. They want hours they can trust.
A clock that records time correctly means payroll runs clean and a board member asking about staff costs gets a straight answer. That's the first thing. The second is money: most nonprofits run on tight, restricted budgets, so the tool itself has to be cheap, and many vendors offer a nonprofit discount that makes it cheaper still.
Then there's proof. When part of a paycheck comes from a grant, you need to show how those hours were spent. Some nonprofits also want to count volunteer hours for their annual report. No single tool nails all of it, so the right pick shifts with what you need most.
Quick Picks: The Best Time Clock Software for Nonprofits at a Glance
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OnTheClock: Best for small nonprofits
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Jibble: Best free for tight budgets
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Homebase: Best for ease of use
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Buddy Punch: Best for tracking hours by program
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Connecteam: Best all-in-one for deskless teams
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QuickBooks Time: Best for QuickBooks payroll
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Deputy: Best for field and program staff
How We Compared the Best Time Clock Software for Nonprofits
We judged each tool on what actually matters to a nonprofit, not on feature-sheet length. We compared every option against the seven needs nonprofits keep raising, reading verified vendor pricing pages and checking reviews on G2 and Capterra:
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Nonprofit price and discount: Whether it's cheap enough for a tight budget, with a free tier or nonprofit discount.
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Ease of use: Whether non-technical staff and volunteers can clock in without training.
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Tracking hours by program or grant: Whether you can tag hours so funded time is documented.
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Funder and board reporting: Whether the reports are clear enough for a board or a grant report.
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Payroll integration: Whether it connects to QuickBooks, Gusto, ADP, or Paychex.
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Mobile and GPS: Whether staff can clock in from a phone, with GPS for offsite work.
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PTO and overtime: Whether it tracks paid time off and calculates overtime correctly.
We ranked OnTheClock first for small nonprofits because it combines low per-user pricing, a nonprofit discount, mobile and kiosk punching, payroll integrations, PTO tracking, and GPS tools with direct nonprofit support, without forcing a small team into a heavier all-in-one operations platform to get them. That breadth at a low base price is the basis for the label, not a ranking against the other picks. Each of those serves its own situation best.
The Best Time Clock Software for Nonprofits
Below, the best time clock software for nonprofits, with the right pick for each situation. For each one, we cover who it fits best, where it stands out, and where it may not be the right move.
OnTheClock: Best for Small Nonprofits
Available on: Web, iOS, Android
Why OnTheClock Is Best for Small Nonprofits
Small nonprofits feel every dollar, so price matters first. OnTheClock charges $4 per employee per month plus a $5 base fee. A 10-person nonprofit pays $45 a month before the nonprofit discount, and 30% comes off after you contact the team. OnTheClock states it serves more than 300 nonprofits, including schools, libraries, and churches, and that churches or shelters in real financial need sometimes get free accounts.
Setup is the other reason. A small nonprofit rarely has IT staff, so the clock has to be simple. Employees punch in from a phone, a shared tablet kiosk, or the web, and the hours automatically enter their time sheets for approval. PTO tracking is built in, and support is handled in-house, so when a question comes up, a person answers.
Why OnTheClock Is Different
Most tools in this list are built for the general small business market and then pointed at nonprofits. OnTheClock leans into the nonprofit relationship directly. It donates a percentage of profits back to charities for every nonprofit customer, and its staff volunteer their own time. That doesn't change how the software works, but it tells you the discount isn't a one-time gimmick.
On the feature side, OnTheClock covers what a nonprofit office needs without the bloat: GPS and geofencing for offsite staff, IP-address restrictions, scheduling, and overtime calculations. It connects to QuickBooks, Gusto, ADP, and Paychex, so hours move to payroll without retyping. A faith-based nonprofit with a dozen staff across a main office and a food pantry can run the whole thing from one screen. Where it stops: OnTheClock tracks hours by job and project, but it doesn't split a single paycheck across multiple grants for formal fund accounting. If federal grant reporting is your core problem, read the FAQ on grant compliance below.
Key Features
Pros
Cons
Pricing
- 30-day free trial, no credit card
- $5/month base plus $4 per user/month, 30% nonprofit discount on request (see how OnTheClock pricing works)
Jibble: Best Free for Tight Budgets
Available on: Web, iOS, Android, kiosk
Why Jibble Is Best for Tight Budgets
Free time tracking usually means stripped down. Jibble breaks that rule. It's a real time clock that's free for unlimited users, and the free plan covers mobile and kiosk punching, GPS, and facial recognition to stop buddy punching, all at no cost. For a grassroots nonprofit or an all-volunteer group, that can be the whole solution.
If you outgrow free, Jibble offers a 50% lifetime discount on its paid Premium and Ultimate plans for nonprofits, claimed by sending proof of status to support. A small literacy nonprofit running a reading program across three library branches can verify identity at each site with facial recognition without paying a cent. Reviewers do flag occasional mobile sync glitches, so test it on your team's actual phones during the free run before you commit.
Key Features
Pros
Cons
Pricing
- Free forever for unlimited users
- Paid plans from about $2.49 per user/month, 50% lifetime nonprofit discount
Homebase: Best for Ease of Use
Available on: Web, iOS, Android, tablet
Why Homebase Is Best for Ease of Use
Some teams just need a clock that works without a manual. Homebase is that. The interface is clean, the mobile app is straightforward, and a new hire can figure out how to punch in without help. For a community center or a single-site shelter with a rotating hourly staff, that simplicity is the whole point.
The free Basic plan handles one location with unlimited employees, which fits a lot of nonprofits that operate out of one building. It includes scheduling, time tracking, and a team messaging tool, so managers can post a schedule and staff can swap shifts in the same app. The limit shows up if you run multiple sites: Homebase prices by location, so a nonprofit with several program offices pays more, and some controls like geofencing sit on paid tiers.
Key Features
Pros
Cons
Pricing
- Free Basic plan for one location
- Paid plans from about $24.95 per location/month
Buddy Punch: Best for Tracking Hours by Program
Available on: Web, iOS, Android, kiosk
Why Buddy Punch Is Best for Tracking Hours by Program
When a position is paid from a specific grant, you have to prove how many hours landed there. Buddy Punch is built for that. Staff pick the program or job when they clock in, and managers can set alerts that fire as hours approach a budget limit. That's a practical way to keep a grant-funded role from quietly going over its hours before you notice.
It's also a serious clock. Buddy Punch offers GPS, geofencing, photo-on-punch, and IP restrictions to stop buddy punching, and it connects to QuickBooks, ADP, Paychex, Gusto, and 200-plus other tools. Be honest about what this is: program budget tracking, not formal fund accounting. Buddy Punch tags and totals hours by code; it doesn't produce a grant compliance report on its own. And the $19 monthly base fee stings the smallest teams.
Key Features
Pros
Cons
Pricing
- 14-day free trial
- Plans from about $4.49 per user/month plus a $19 base fee
Connecteam: Best All-in-One for Deskless Teams
Available on: Web, iOS, Android, kiosk
Why Connecteam Is Best for Deskless Teams
Outreach workers, drivers, and program staff spend their days in the field, not at a computer. Connecteam is built mobile-first for exactly that. Staff clock in from their phones, check the schedule, read a message from a coordinator, and finish a training module without ever logging into a desktop. For a nonprofit running meal delivery or community outreach, that's one app instead of four.
The free Small Business plan covers up to 10 users with full features, which suits a small program team. Above that, paid plans start at a fixed monthly price for the first 30 users, so cost doesn't climb per head as fast as some rivals. The catch is that the strongest features, advanced reporting and live GPS, sit on the higher paid tiers, so map your needs to a plan before you sign.
Key Features
Pros
Cons
Pricing
- Free for up to 10 users
- Paid plans from about $29/month for the first 30 users
QuickBooks Time: Best for QuickBooks Payroll
Available on: Web, iOS, Android, kiosk
Why QuickBooks Time Is Best for QuickBooks Shops
If your bookkeeper already lives in QuickBooks, a clock that plugs right in saves real work. QuickBooks Time, formerly TSheets, syncs hours directly into QuickBooks Online for payroll and lets you map time to classes and projects, which helps when you allocate costs across programs. Staff clock in by mobile, desktop, or a shared kiosk, and managers approve from the Workforce app.
The Elite plan adds GPS geofencing and project tracking that compares actual hours against a budget. A midsize nonprofit with a finance team that closes the books in QuickBooks every month gets the tightest link between hours worked and dollars reported. Watch the cost, though: QuickBooks Time runs a monthly base fee plus a per-user fee, and geofencing only comes on the pricier Elite tier, so it's rarely the cheapest option for a small team.
Key Features
Pros
Cons
Pricing
- 30-day free trial
- Premium from a $20 monthly base plus $8 per user/month
Deputy: Best for Field and Program Staff
Available on: Web, iOS, Android, kiosk
Why Deputy Is Best for Field and Program Staff
Shift scheduling and attendance proof are Deputy's core strengths. Service nonprofits run on shifts: a shelter overnight, a clinic front desk, a weekend program. Managers build schedules and publish them to staff phones, and employees clock in with GPS, facial recognition, or a kiosk that confirms the right person at the right place. For a nonprofit with staff rotating through several program sites, that's accountability without hovering.
Deputy also handles compliance well. It can require staff to confirm breaks and meal periods at clock-out, which creates a record that supports federal labor law. It connects to QuickBooks, ADP, Gusto, Xero, and Square, so approved hours move to payroll cleanly. The trade-off is cost and setup: Deputy has no free plan, and time tracking plus scheduling can mean paying for add-ons, so it's better for organizations past the smallest stage.
Key Features
Pros
Cons
Pricing
- 31-day free trial
- Plans from about $4.50 per user/month, no free plan
Side-by-Side Comparison
| Tool | Best For | Pricing | Key Strengths | Top Integrations |
|---|---|---|---|---|
| OnTheClock | Small nonprofits | $5 base + $4/user/mo | Cheap, easy, in-house support | QuickBooks, Gusto, ADP, Paychex |
| Jibble | Free for tight budgets | Free; paid from ~$2.49/user | Free unlimited users, facial recognition | QuickBooks, Gusto, Xero |
| Homebase | Ease of use | Free 1 location; from ~$24.95/location | Simple, scheduling built in | QuickBooks, ADP, Paychex |
| Buddy Punch | Tracking hours by program | ~$4.49/user + $19 base | Job codes, budget alerts | QuickBooks, ADP, Gusto, Paychex |
| Connecteam | All-in-one deskless | Free ≤10 users; from ~$29/mo | Clock, schedule, chat in one app | QuickBooks, Gusto, Paychex |
| QuickBooks Time | QuickBooks payroll | $20 base + $8/user/mo | Native QuickBooks sync | QuickBooks, Gusto |
| Deputy | Field and program staff | From ~$4.50/user/mo | Scheduling, compliance attestations | QuickBooks, ADP, Gusto, Xero |
Comparison data verified June 2026 against each vendor's own site; subject to change by respective providers.
What's the Best Time Clock Software for Nonprofits?
The best option isn't the one with the longest feature list; it's the one that fixes the friction you hit most.
Start with one question: what slows you down right now? Many nonprofits buy for features they might use someday and end up with software that's heavier than they need and a team that avoids it. Focus on your current bottleneck instead.
- Is your budget the hard limit? Look at Jibble or Homebase, both free to start.
- Do you just want simple, with no training? Homebase or OnTheClock.
- Do you need to track hours by program or grant? Buddy Punch.
- Are your staff out in the field on phones? Connecteam or Deputy.
- Do you run everything through QuickBooks already? QuickBooks Time.
Your answer points to your pick. The right time clock for your nonprofit removes the friction from the problem you hit most often. Fix that, and payroll stops eating your week.
What Is Time Clock Software?
Time clock software records when your employees start and stop work. Instead of a paper sheet or a punch card, staff clock in from a phone, a tablet kiosk, or a computer, and the hours automatically enter a digital time sheet.
For a nonprofit, that record does double duty. It feeds payroll so people get paid correctly, and it creates proof of hours worked, which matters when those hours are tied to a grant or reported to a board. Most tools add scheduling, paid time off tracking, and overtime calculations on top.
Who at a Nonprofit Needs Time Clock Software?
Any nonprofit with hourly employees needs it. That includes shelters, food banks, clinics, schools, churches, libraries, and community centers that pay staff by the hour.
The person who feels the pain is usually the executive director, the operations or HR manager, or the finance lead. They're the ones reconciling punches, running payroll, and answering a funder's questions about staff costs. Salaried-only nonprofits have less need, since federal labor law doesn't require tracking exempt employees' hours, though many still track for grant reporting.
Why Nonprofits Rely on Time Clock Software
For a nonprofit, accurate hours aren't a nice-to-have. A single payroll error wastes money a program needed, and a sloppy record can complicate a grant report or an audit.
Manual tracking makes both risks worse. Paper sheets and spreadsheets invite missed punches, rounding errors, and buddy punching, where one employee clocks in for another. Time clock software removes most of that by capturing each punch with a time stamp, a location, and sometimes a photo. The result is hours the finance team can trust and defend. You can read more in our complete guide to employee time tracking.
Key Features Nonprofit Time Clock Software Should Have
Before you compare prices, know which features actually matter for a nonprofit. Here's the short checklist:
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Affordable pricing or a nonprofit discount: so the tool fits a restricted budget.
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Simple clock-in: by mobile, kiosk, and web for non-technical staff.
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Job or program tagging: so you can see where funded hours go.
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Payroll integration: with QuickBooks, Gusto, ADP, or Paychex.
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PTO and overtime tracking: that follows federal labor law.
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GPS or geofencing: if any staff work offsite.
How to Choose the Right Time Clock Software for Your Nonprofit
Step 1: Name your two biggest problems. Before you look at a single tool, write down the two things that hurt most right now. Maybe it's payroll errors, maybe it's proving grant hours, maybe it's staff who forget to clock in. Everything else is secondary. This list keeps you from buying features you'll never use, which is the most common and most expensive mistake nonprofits make. The tool that fixes your top two problems is almost always the right one.
Step 2: Set your real budget. Figure out what you can actually spend per month, and remember to count the base fee, not just the per-user price. A $4 per-user tool with a $19 base fee costs more than the sticker suggests for a small team. Then ask every vendor about a nonprofit discount, because many offer 30% or more and some, like OnTheClock, sometimes give free accounts to organizations in real need. A few minutes on email can cut your bill by a third.
Step 3: Check the payroll connection. Look at how you run payroll today, then confirm the time clock connects to it. If you use QuickBooks, Gusto, ADP, or Paychex, a native integration means approved hours move to pay without anyone retyping them. Retyping is where errors creep in, and errors cost a nonprofit money and trust. If a tool doesn't connect to your payroll, cross it off, no matter how nice it looks.
Step 4: Match the clock-in method to your staff. Think about where your people actually work. Office staff can punch from a computer, but field and program staff need a mobile app, and a shared site might need a tablet kiosk. If anyone works offsite, look for GPS or geofencing so you can confirm they clocked in where they were supposed to be. The best method is the one your specific team will actually use without complaining.
Step 5: Confirm it tracks what funders and boards need. If any staff time is paid by a grant or a specific program, you need to tag and report those hours. Check whether the tool lets you assign hours to a job, program, or grant code, and whether its reports are clear enough to attach to a funder report or hand to your board. This is where general business tools often fall short for nonprofits, so test it with a real example before you commit.
Step 6: Run a free trial with real staff. Never buy on a demo alone. Almost every tool offers a free trial, so use it: have two or three actual employees clock in for a full week on their own devices. You'll learn more from one real week than from any feature list. Watch for missed punches, confusing screens, and sync problems. If staff struggle in the trial, they'll struggle after you pay, so trust what you see.
Tips for Rolling Out Time Clock Software Successfully
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Tell staff why before you launch. People resist new tracking when it feels like surveillance. Explain that accurate hours protect their paychecks and help the nonprofit keep its funding. When staff understand the clock works for them too, adoption gets far easier.
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Start with one team or site. Don't switch the whole organization at once. Pick one program or location, work out the kinks for a week or two, then roll out everywhere with lessons already learned. A small first step prevents a big organization-wide mess.
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Set up payroll and program codes first. Before the first real punch, connect your payroll integration and create your job or grant codes. For grant-funded roles, keep your records in line with federal time-and-effort rules under 2 CFR 200.430. Getting this right on day one means hours flow correctly from the start.
Frequently Asked Questions
Do nonprofits have to track employee hours?
Yes, for hourly employees. The U.S. Department of Labor requires employers, including nonprofits, to track and keep records of hours worked for nonexempt (hourly) staff, and to keep time records for at least two years. Salaried exempt employees don't require hour tracking, though many nonprofits track them anyway for grant reporting. See the DOL's overtime exemption fact sheet for the exempt-status rules.
What's the best free time clock software for a nonprofit?
Jibble is the strongest free option, with unlimited users, mobile and kiosk punching, GPS, and facial recognition at no cost. Homebase is also free for a single location with unlimited employees. Both let a tight-budget nonprofit start tracking without paying anything.
Do time clock apps offer nonprofit discounts?
Many do. OnTheClock offers a 30% nonprofit discount and sometimes free accounts for organizations in dire need. Jibble offers a 50% lifetime discount on paid plans, and Hubstaff offers 30%. You usually claim it by contacting the vendor with proof of your nonprofit status.
How do nonprofits track staff hours across multiple grants?
Most time clocks let you tag hours to a job, program, or grant code, so you can see how much funded time each role used. Tools like Buddy Punch add alerts when hours approach a budget limit. For formal federal grant compliance, the standard is time-and-effort documentation under the federal Uniform Guidance (2 CFR 200.430), which requires records that accurately reflect the work charged to each award. A time clock captures the hours; pair it with your accounting or grant system for full fund reporting.
Can a time clock track volunteer hours?
Some can log volunteer hours alongside staff hours, but dedicated volunteer-management tools are usually a better fit for large volunteer programs. For your annual IRS Form 990, note that volunteer time is not reported as revenue; full-form filers report the number of volunteers, which you can describe in the program accomplishments section. If counting volunteer hours matters to you, test that feature specifically before choosing.
Do nonprofits have to pay overtime?
Often, yes. Under the federal Fair Labor Standards Act, nonexempt employees earn overtime at 1.5 times their regular rate for hours over 40 in a workweek. The current salary threshold for exempt status is $684 per week ($35,568 per year). A time clock that calculates overtime automatically keeps that math right every pay period. State rules can be stricter than federal, so check your state labor department.
How much does nonprofit time clock software cost?
It ranges from free to about $20 per user per month. Free options like Jibble and Homebase cover the basics. Mid-range tools like OnTheClock run a few dollars per user plus a small base fee, often with a nonprofit discount. The total depends on your headcount, the features you need, and whether you qualify for a discount.
Start Tracking Time for Free
Join the 300-plus nonprofits already using OnTheClock to keep payroll right and grant hours clean. Start your 30-day free trial, then contact us to apply your nonprofit discount.
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