First thing that I would do is toss the Carter out on the highway in front of a semi! Seriously though, I agree with Missouri that this sounds like more of a coincidence. There are a lot of threads on here about what to look for on the BBD. Check the fuel pressure and look to see if you have gas dripping in the carb. The sputter and flooding could be plugged venturi or a bad float. If you can find a Weber or Motorcraft 2100/2150 on craigslist or ebay, I'd snatch it up and change over the carb. I find the Weber easy to adjust and running the 38DGES on a stock motor I'm getting 17mpg with 31" tires.
1988 YJ, 4.2L, 2.5" OME, .75" boomerangs, 33x12.5x15 Cooper Discoverers, Herc'd,Nuttered, TeamRush'd
2001 WJ stock DD, 4.0l, Select-Trac
Most good stories start out "Y'all ain't gonna believe this ****...."