Connecting an Ethernet PHY to Arduino Due

Frenki_, I am happy you also embark in this journey. Welcome aboard!
In reference to your arduino + ethenet shield + node.js, shrewd and amazing! You should submit it to the Arduino blog if you have not already done so.

By the way, I just noticed something in the Taijiuino.

The pin 10 (RESET) of its Ethernet terminal is connected to the pin 47 (NRSTB) of the SAM3X8E instead of pin 69 (NRST).
Pin 47 is input only and enables asynchronous reset of the SAM3X8E when asserted low, unlike pin 69 which is bidirectional and can provide a reset signal from SAM3X8E to the external components.

In the SAM3X-EK, pin 69 is connected between SAM3X8E and DM9161.