All of the parts seem to heat up unreasonably, especially the 16Mhz...resonator? (not sure what the correct name is)
When directly connecting the pins of a USB cable to Vin, GND, TX and RX, the computer knows something was connected, but can't talk to it.
Why is connecting the USB wires directly bad?
isn't it pretty much the same thing as connecting to the USB port?
Yes, only the USB cable is connected.