I have 2 Hyperion, an FMA and a Thunderpower charger and Ive run all of them with my truck running many times with no issues.
You may have a regulator problem on your car thats causing your alternator to run too hi a voltage or surging.
The other thing is, you dont want to try to start the car while the charger is running or connected. During the start cycle, your battery voltage can drop way down, then when the engine catches, there can be a voltage spike before the regulator kicks in.
That may have caused your damage.
Check your battery voltage while the car is running. It should be around 14.8 volts.
The Hyperion chargers are good for a much higher input voltage than that. Well over 24 volts IIRC.