JVZ,
The Super BEC (the last one you have) is the typical way to do things, however, I prefer to use the Super Mini instead. See the link below:
http://www.western-robotics.com/hercules-super-mini_hp.htmlThis is a 6S BEC, which does two things for you...
1. It saves you money, weight, and space over the 12S Super regular version.
2. It forces you to wire it into one side only of your series Y-harness.
The first point is an obvious benefit without need for further explanation.
The second point is for safety and convenience ...
By wiring your system this way, you are able to plug only one of your two series 5S or 6S batteries into the side of the Y-harness where the BEC resides, thus powering only your receiver, FBL, and associated electronics. This allows you to do programming on the bench without the ESC being powered. Furthermore, take her out to the flight station with only the flight control electronics powered up and then plug in the second battery to power the ESC once you're ready to fly.
Please keep in mind that this only works if you're running a split-battery setup. If you're using one of the 10S packs like (I believe) Thunder Power offers, which gives you a fully-wired 10S output, then you'll be forced to plug into only one connector at the ESC and, as a result, will need the non-mini version (12S) Super BEC.
Let me know if you have any questions and good luck with your setup!
Cheers,
-->J