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Guide

How a Stripe dispute hits your payout, and how to record it in your books

A customer disputes a $200 charge. Your next payout is $215 short, and if you submit evidence it is $230 short. Weeks later, if you win, $215 comes back in a different payout. That is three payouts touched by one sale, and none of the deposits explain themselves.

What leaves your balance the day a dispute opens

Stripe debits the full disputed amount from your balance as soon as the card network notifies it, not when the dispute is decided. On the same day it charges a dispute fee, $15 for a US account. Both come out of the next payout. Your bank deposit is smaller by the disputed amount plus the fee, and the sale itself was paid out days or weeks earlier, so nothing in the current week's sales explains the gap.

The second fee if you fight it

For disputes opened since June 17, 2025, a US account that submits evidence pays a second $15 dispute countered fee. It is a separate line in the payout that carries it. Stripe returns the countered fee if you win. It never returns the first dispute fee unless your contract says otherwise. So a dispute you fight and win still costs $15; one you fight and lose costs $30 plus the sale. Amounts differ by country and change over time, so check Stripe's pricing page for yours.

What comes back if you win

When the card network rules for you, a dispute reversal appears as a positive line in a later payout: the disputed amount and the countered fee. That payout is now larger than its sales by that amount. Decisions usually take weeks to a few months, which means the money often comes back in a different month than it left.

A worked example

On March 4 a customer disputes a $200 charge from February. The March 6 payout carries a minus $200 dispute line and a minus $15 fee. You submit evidence on March 10; the next payout carries a minus $15 countered fee. On April 22 you win; the April 24 payout carries plus $200 and plus $15. Across the three payouts you are out $15, the received fee. In March your deposits are $230 below your sales; in April they are $215 above them.

How to record it

Keep the original sale as revenue. When the dispute opens, record the $200 against revenue or a chargebacks account (contra-revenue) and the fees as an expense, in the period the money left. If you win, reverse the $200 and the countered fee in the period they come back. If you lose, the entries simply stay. Do not net the dispute into the deposit and move on: a deposit booked as revenue would hide both the lost sale and the fees. Your accountant may prefer a holding account for open disputes; either way, the dispute lines in the payout are the source, not a guess.

Telling a dispute from a real problem

Every dispute line in a payout points to a charge. If you can find that charge in an earlier payout, the gap is timing and the only real cost is the fees. If the dispute is on a charge you cannot find, or the amounts do not agree, read it today. The other thing to watch is your chargeback rate: Stripe's own guidance treats roughly 0.75% of transactions as high, and a rising rate is one of the things that can lead to a reserve on your account.

Catch it the morning it happens

Conciliq rebuilds each payout from its balance transactions and marks one that carries a dispute or a reversal as Timing, with the charge it belongs to and the fees, so you see a dispute the day it lands instead of at month-end.

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Questions people ask

Does Stripe refund the dispute fee if I win?
Only the countered fee, the one charged when you submit evidence. The first dispute fee is not returned unless your Stripe contract says otherwise.
Is a dispute fee a processing fee for accounting?
It is a cost of taking card payments, so most books put it in the same expense account as Stripe fees or in its own chargeback expense account. Ask your accountant which they prefer, then stay consistent.
Should I refund instead of letting it become a dispute?
If the customer is right, usually yes. A refund costs the sale and the original processing fee; a lost dispute costs the sale, the fees and counts toward your chargeback rate.

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