First thing, keep everything clean. Strip any paint, rust, etc away from the area to be welded.
The fluxcore welder is going to suck to use, it isn't made for high quality welds. You would be much better with the 220 welder with gas. Set it on 1 or 2 for the heat setting, and between 3-5 for wire speed, higher heat, higher wire speed, lower heat, lower wire speed.
The key is to tack weld. Keep the heat down on the panel as much as possible. DO NOT try to weld the seam in one pass, you will end up with very bad warpage. The more evenly you distribute your tacks, the more evenly it will pull the panel, resulting in less warpage. This is one thing to remember. Any welding you do on sheetmetal is going to shrink the panel, the more heat, the more shrinkage. So this also means the more consistantly you heat affect the panel, the less it will warp. If you have a bunch of differently penetrating welds, IE hot welds, cold welds, all along a seam, each of those tacks is going to pull on the panel at different rates.
If you're burning through, there could be a couple reasons. Either you are running too hot, not enough wire speed, or the gap you're trying to weld is too wide. If I'm making belt cuts, say in the sail panel of a quarter panel, I overlap the two pieces, making sure to line everything up right (gaps...) and then cut through both pieces with a 32t airsaw blade. This leaves just enough gap to make a nice weld that will penetrate no matter what, and you can grind it flush without worry of cracking.
Sheetmetal is an evil demon, but if you take your time to learn what to expect, you'll get it down in no time. You really, really, really should use the gas welder though, it'll make your life so much easier.
And the only time you should need a weld backer of aluminum or copper (copper works the best) is if the sheetmetal is deteriorated by rust, or ground or stretched thin.