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  1. Invoicing & Billing System
  2. Features
  3. Payments and reconciliation
Feature · Payments and reconciliation

Payments and reconciliation

Connect customer receipts to invoices and check their actual payment outcome. A customer who owes 1,000 may pay through a hosted checkout while the processor later deposits a smaller amount after fees. The receipt records the gross customer payment and the processor reference. The fee and net deposit explain the difference at the bank; they are not a second customer charge or an unexplained unpaid remainder.

OverviewMy Draft Invoices
Invoicing & Billing System · Payments and reconciliation

My Draft Invoices

Invoices

New
Invoice numberClientIssue dateDue dateTotalStatus
INV-38996Stonepath Consulting09 Oct14 Oct190Draft
INV-30820Cedar Vale Architecture18 Oct27 Oct440Draft
INV-10018Marlow Creek Bakery19 Oct26 Oct460Draft
INV-92241Harbor Lane Interiors11 Oct13 Oct910Draft
INV-81811Blue Finch Wellness09 Oct12 Oct350Draft
6 of 6 records
Stonepath ConsultingInvoices · INV-38996
Draft
Issue date09 Oct
Due date14 Oct
Total190
Example screen with sample data

What you can do

Keep the business context together

Payment links direct a client to configured hosted checkout. Store the provider session and transaction references against the invoice, then reconcile verified incoming events with the expected customer, amount and currency. Processor fees and net deposits remain distinct from the gross amount collected from the customer.

Opening a payment link starts checkout and may create a provider session, but it does not prove that money was collected. Authorization, pending processing, cleared payment and a later refund are distinct outcomes. Show the invoice as paid only when the verified receipt and the remaining balance justify that result.

Give each decision a clear owner

Owner / Admin connects the payment service and controls restricted bank settings. Bookkeeper records evidenced cash or check receipts and investigates exceptions. Client access is limited to their document and its payment action; the link never grants permission to edit billing or business configuration.

Cash and check receipts need their own supporting evidence. A bookkeeper can identify the invoice and payment method, record the received amount and retain a reference that can be compared with the eventual bank activity. A check that is returned requires a linked correction rather than leaving the invoice permanently marked paid.

Handle exceptions with the original record

Verify provider signatures and reject cross-account events. An authorization is not cleared money. Duplicate and out-of-order callbacks must not double the receipt. Refunds, failed payments and disputes preserve the original transaction reference and recalculate the collectible amount without deleting financial history.

The payment list helps explain a partial payment, a fee difference or a transaction under dispute. Follow the provider reference to investigate an uncertain result. When the provider sends the same event twice, the existing receipt remains the result; the customer balance must not fall again just because a callback was repeated.

Find the work that needs attention

A refund belongs to the original payment and invoice. Review the confirmed refund amount and whether any part of the invoice remains collectible. Preserve the original receipt and refund evidence together so an owner can distinguish a deliberate refund from a duplicate payment, a processor dispute or a failed bank deposit.

Configure it around your business

Configure hosted checkout accounts, permitted currencies, verified callback handling and bank-setting access before offering online payment. Include a declined payment, a partial payment and a confirmed refund in the setup review. Customers keep a simple payment action while staff receive enough transaction detail to explain what actually happened.

What your team sees

  • Recent Payments — Review the work and supporting records for this module.

What it keeps track of

Data model
Payments
Records of money received against an Invoice. Webhook-fed for Stripe / Square; manually entered for Check, Cash, and Other. Carries the processor reference and the processor fee so the net deposit reconciles to the bank.
Payment links
Tokenized checkout URL per Invoice, generated by the payment-link-creation workflow on Invoices.Status = Sent. The Client clicks this from the invoice email and lands on a Stripe / Square hosted checkout that supports ACH and Card.
Invoices
The bill the Client owes. Draft becomes Sent after validation and sealing; the first permitted view may mark an unpaid Sent document Viewed. Recognized receipts derive partial paid or Paid from the issued balance. An unpaid Sent, Viewed or partial paid invoice becomes Overdue only after its due date. Paid never becomes Overdue merely as time passes. An evidenced refund or reversal can reopen a positive balance into partial paid or Overdue. An authorized void produces terminal Voided; viewing, reminders or delayed callbacks cannot undo it. Generated by direct user create, by estimate-converts-to-invoice, or by recurring-invoice-generation on the RecurringSchedules cadence. The rendered invoice PDF and the line-snapshot are frozen on Send. Line snapshot is a sealed JSON snapshot frozen at Status: Sent — never edited; for the live editable line set see invoice lines.
Business profile
Single-row configuration for the small business itself. Carries the legal name, logo, federal tax ID (used on 1099 forms), and the bank account that payouts land in. Only the Owner / Admin can edit; FederalTaxID and BankAccountNumber are masked to all other roles.

Who uses it

Permissions
Owner / Admin
Owner / Admin works within the record, field and action scope below.
Bookkeeper
Bookkeeper works within the record, field and action scope below.
Viewer
Viewer works within the record, field and action scope below.
Client
Client works within the record, field and action scope below.

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