Disclosed is a method and system for detecting faults of a battery heating system and relays. In particular, a method for detecting welding of each relay such as a main relay, a precharge relay or a heater relay and a method for detecting a fault of a battery heating system such as a short circuit, disconnection or damage of each heater are provided by sensing a voltage. In the methods, the on/off state of the heater relay and the high voltage relays is controlled through a predetermined process to detect a fault of the heater relay or the high voltage relay, and welding of the heater relay or the high voltage relay is then detected from a voltage for fault detection which is sensed through a voltage sensing circuit unit for fault detection.