If a tenant pays more than the amount outstanding on invoices you can deal with it in two different ways.
Option 1 - receipt the overpaid portion to the Tenancy Ledger, where it can be applied to future invoices as they become due or refunded
For more information about Tenancy Ledgers click here.
Option 2 - generate the future invoices to match the funds to. This is done in the Tenancy File on the Rent and Outgoings page using the link to 'generate next rent invoice'. Use this link as many times as required to advance the billing far enough for the funds received to be able to be receipted to invoices. Invoices generated using this option are not automatically emailed to the tenant.