If its only running with the choke on you still have a blockage somewhere. Pull the jets and the mixture screw, run through everything again. Make sure the mixture screw is set right, lightly seated then backed out about 2 turns is a good starting point, you will have to do final adjustment after warming it up and getting it to idle, the you turn it out a little at a time till engine stalls, make a note of that point, turn it back in a turn or two so it will run again then get it idling and turn it in until it stalls, note that point and set it between the two points it stalled and that will take care of it.
If all else fails get a new carb. For the cost of a rebuild kit you can buy a brand new one off ebay, about $30 shipped. I have one of those new carbs on my 84 200ES, the original carb is in pieces in a bucket for now. When i bought it the previous owner replaced the carb, i tried rebuilding the stock carb to put back on if needed cause it was running badly, after putting it back on it ran worse, turned out to be something else and i never put the stock carb back on because the new one runs better.
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1984 Honda ATC200ES "Big Red"
1982 ATC200E "Hondie"
1988 TRX300FW "Project Quad" Still in progress....