Hi cbankord,
There is a forum just for the WiFi Pineapple NANO, you should post there instead.
You can manage the WiFi Pineapple via the Web Interface, or via SSH where you have access to the existing ASH shell, but you can install BASH or ZSH should you want to.
You can manage monitor mode on the NANO's network interfaces with airmon-ng, a part of the Aircrack-NG suit.
To start a monitor interface on wlan1:
airmon-ng start wlan1
You will then have an interface called "wlan1mon". To stop it, you can do "airmon-ng stop wlan1mon".
Hope this helps.