There's allot to read here : http://www.advrider.com/forums/showthread.php?t=86958
On issue 1 - sounds like the decompression system doing it's job to me. The clacking sound at low idle (too low - may be part of your stalling issue) and shut down is totally normal. Idle speed should be 1800 rpm or so which will keep the decompression system from kicking in.
The rear lights on these bikes suffer from vibration issues. It's hard on the contacts and filaments. Try another bulb, make sure the contacts are getting good/firm contact, get a couple of spare bulbs, don't buy cheaply made bulbs.