I’ve updated the Add-on on AnkiWeb, so it should now process Fields with clozes properly. Try upgrading and refilling your Choices (using the “Overwrite” option).
Judging by the screenshots, it looks like that extension places all the information into the same Field, resulting in a mess. But I’m not familiar with it, so it’s hard to say how it can be fixed. You’ll have to provide more info on the actual Field contents of the Cards and what steps you are following to switch the Note templates if you need any assistance with that.