Muscle glycogen fuels the conversion of ADP back to ATP. This generally occurs when intense efforts go past 10-15 seconds or so. So if you do lots of fast step ups, yes you will burn glycogen. Is that a good thing? Well- you burn glycogen you lose weight - but if you replenish the carbs within 24 hours the glycogen stores fill back up. It’s how our body works.
If you are on a low carb diet the glycogen levels take a much longer time to recover and you will proportionately burn more fat in the intervening days.