Make sure no debris is inside the metal rail on the Charge Station. Make sure you have the controller completely seated in the metal rail. There should be a noticeable “click” sound when the controller is fully seated. Double check that the Nyko logos are lit up, if they are not, the USB port you are using may not be powered.
No, the Charge Station will automatically stop charging when the battery is full.
If the controller was completely drained of its battery, it may take a few minutes for the charging indicator light to turn on. If it does not turn on after 5 minutes, please follow the suggestions from the first question stated above, or contact customer support here.