Workforce.com Payroll supports several payment methods so you can pay employees the way that works best for your business. You can even use different methods for different employees within the same pay run.
Payment Methods
1. Direct Deposit
Direct deposit is the most common way to pay employees. Funds are transferred electronically from your company bank account directly into your employees' bank accounts via ACH (Automated Clearing House).
See the Uploading Employee Bank Details guide for how employees can update their ACH information.
2. Check Payment (Checkeeper)
If your organization has the Checkeeper integration enabled, you can issue printed checks instead of direct deposit.
See the Exporting Paychecks to Checkeeper help guide for how to set up the integration and designate pay stubs as check payments.
3. Manual Payment
Use manual payments when you've already paid an employee outside the system — for example, with cash, a wire transfer, or a handwritten check. This tells the system not to process any bank transaction for that pay stub. The pay stub still records earnings and deductions for reporting and tax filing purposes. Workforce still collects and pays taxes for manual payments.
Marking a Pay Stub as Manual
Open the draft pay run and click on the employee's name to open their pay stub
Click the Actions dropdown
Select Mark as manual payment
Confirm when prompted
A Manual Payment badge will appear next to the employee's name in the pay run list. When the pay run is posted, no funds will be transferred to the employee for this pay stub.
Reverting to Direct Deposit
While the pay run is still in draft:
Open the employee's pay stub
Click the Actions dropdown
Select Mark as auto payment
Confirm when prompted
The badge is removed and the pay stub will be paid via direct deposit when the pay run is posted.
Frequently Asked Questions
What if an employee doesn't have bank details on file?
You'll need to either have them add their bank account in the mobile app, or mark their pay stub as a manual or Checkeeper payment.
Do manual payments still show up on tax forms and reports?
Yes. All pay stubs are included in payroll reports, tax filings, W-2s, and 1099s regardless of payment method.
Does Workforce still collect taxes on Manual and Checkeeper payments?
Yes. Workforce collects taxes via ACH for all taxes in the pay run, regardless of payment method. Ensure you have enough funds in your account for the tax collection.
Can I use different payment methods for different employees in the same pay run?
Yes. Each pay stub has its own payment method, so you can mix direct deposit, check, and manual payments freely.