How to disable Arduino Yun to work as Access Point and set it to work as needed?

b) Arduino Yun connected just over Ethernet (Wi-Fi connection disabled).

http://arduino.cc/en/Guide/ArduinoYun

Using the onboard Ethernet

When you connect the Yun to a wired network with an ethernet cable, it will try to connect automatically via DHCP. The board will show up on the ports menu just as it would over WiFi.
If you want to connect the Yun directly to your computer, either configure the computer's interfaces to have a static IP address, or act as a DHCP server.
NB: the ethernet interface is eth1, not eth0

Disable wifi:

http://forum.arduino.cc/index.php?topic=226179.0

nano /etc/rc.local
#wifi-live-or-reset

a) Arduino Yun connected just over a given Wi-Fi network (Ethernet connection disabled).

http://arduino.cc/en/Guide/ArduinoYun

follow instruction of "Configuring the onboard WiFi"