No do not void the payment, that will not only change the P&L form last year, but if you were buying inventory it is as if they were never bought in cash basis reporting.
create in the chart of accounts an expense account called clearing
make a deposit in the QB bank account for that amount and use the clearing expense account
then pay the vendor for real and again use the clearing expense account
when you reconcile, check off the old QB payment against this deposit
when the new check clears it will show up for reconciliation
