Two order sources that arrive differently from a walk up order.
Attach loyalty before tender. Retrofitting it after payment is a manager job at best and often not possible at all.
Online orders appear in their own view at the terminal. Staff view online orders from the order entry area and work them alongside walk up trade.
Loyalty Transactions and Online Orders.
Source: Global Payments / Xenial Enterprise POS product documentation. Enterprise sites are heavily configured, so confirm the exact behaviour against the customer own build before advising a change.