I can't open the link (network issue), from your description it should be fine.
Connect DTR thru 0.1uF cap to reset pin as well, or use a seperate reset button.
I do similar here for power. Jumper lets user select between USB for power, or from regulator for power when USB cable is not plugged in to the MIKROE483 USB Module (under $9 at mouser, no messing with soldering the really small FTDI chip)
http://www.crossroadsfencing.com/BobuinoRev17
