Is the Xbee expecting 3.3V Vcc and 3.3V levels? If so, might be causing overheating.
I am a rookie on these things so since I am using the xbee shield of sparkfun I assume it uses the correct pin to provide power to the xbee which is the 3.3V.
Easter? Wasn't that a while ago?
In Cyprus is Easter holidays next week.
Please clarify, why is pin two connected to VIN?
It is not connected to VIN. As I have indicated in the table above, it is connected to the +5V pin.