i nerd out all the time on my commando, but mostly to fool around with root things and scripts and finding ways to unpack nandroids i've made.
i tried the apps youre using but i'm not a big fan, it was just too complicated so i simplified things by using swiFTP which is a FTP server app, so i can wirelessly transfer files with anyone on the same network as me without a secondary app to download on a computer. Also, busybox is a must have for running scripts and messing with the terminal emulator. If youre just looking to do things between the computer and commando, i do use twist player for my music and videos, it automatically wirelessly syncs with my computer to update my music and it downloads album covers automatically.