Hmm you have boldly gone where Zippy has not gone before.
But lets use logic to see what we can do. You say the the top piston looks all charred and black. From that we could deduce that ;
1. it isn't exhausting all the burnt gases or
2. is being overwhelmed by fuel so it can't exhaust all the gases.
So basically it is choking to death on smoke ( no oxygen left in the cylinder to support combustion)
To test this theory take the exhaust off. See if it will start and ride it around the block (so you are close to home) or a big parking lot so you don't have to push it home so far. Keep riding to see if it runs better and doesn't stall.
Check the port and clean it along with checking the exhaust pipe and muffler.
The piston acts as a vacum pump on it's downward stroke pulling air out of the cylinder. The piston on it's downward stroke first pushes exhaust gases out the exhaust port then as it continues downward it sucks the air out of the cylinder causing gas/oil mix to rush in to fill the void. Now the piston starts back up again to compress the gas/air mix till it gets just before TDC and the spark plug fires. If the cylinder is still full of exhaust it will be become like a stopped up fireplace.
Now for why it is being overwhelmed or not exhausting properly. I suspect a relationship between the new carb providing more air/gas/oil mix.
Maybe you need a hotter plug. the lower the number the hotter the plug. I use NGK B6 or 7HS on stock Grandes. I would recommend trying a B5 or B4 gapped at .020.
Also take it a step at a time. Take off your cylinder head and clean the domed top and the pistion top (decarb). Also clean the exhaust port before you put the stock muffler back on.
Then put your stock muffler back on and ride for awhile (a day or two) with the new carb and old stock muffler.
I would recommend you contact your supplier because they should have some experience with this.
I hestiate to recommend timing changes or even a hotter plug for fear of overheating or burning a hole in your piston as Fred pointed out.
Try decarbing, go back to the stock muffler and take it a step at a time. Don't introduce too many variables into theix at one time. Then work with your supplier to see how they can help.
Give us a report back on you progress.