If you select [Machine Setting(s)] in [Bypass Tray] under [Tray Setting Priority] in [System] of the Printer Features menu, the settings made using the control panel have priority over the printer driver settings. For details, see "System", Print.
The default of [Bypass Tray] is [Driver / Command].
Settings remain valid until they are changed.
For details about setting printer drivers, see "Printing Documents", Print.
The default setting for [Printer Bypass Paper Size] in [Tray Paper Settings] is [Auto Detect].