Aside from any other unidentified problems you may be having, Tony has already caught one definite problem with this question:
Did you also install the new 2.0 firmware onto the player itself?
You say you have not installed anything onto the unit itself. As far as I know, different software versions will not talk to each other. So emplode 2.0 installed on your computer is not going to talk to kernel 1.02 on your player. You need to follow the instructions for upgrading the player's software using the serial port. If that doesn't work, then you also may be having issues with USB.
I would agree with Tony about which connection to use, though. Ethernet is several times faster. But you'd still have to upgrade the player kernel to 2.0 before you'd be able to use it.