There is plenty of healthy debate as to which is brightest, with the 3 watters seeming to gain more favour. The 3 watt part is designed to take higher currents, and it also generates more heat (LOTS of heat) so you will need to decide how much heat your host light will be able to handle.
The 1 watt luxeon needs roughly 3.7v, the 3 watters about 4v, so to run off 3 volts, youll need something like the BadBoy, which is a boost regulator. To run off 6 volts, you want a DownBoy stepdown regulator. Both of these can be found on the "Convertor boards" section at anlighten.