Two batters sit in identical paper cups. One will behave inside your body like bread, the other like cake. The difference is not the cup, or even the flour, but how sugar, fat and air are arranged at the microscopic level.
Muffins typically carry more flour and less sugar and fat, and the batter is stirred just enough to keep gluten networks intact. Those protein networks and starch granules slow gastric emptying and flatten the glycemic index curve, so glucose enters the bloodstream more steadily. The texture feels denser because the crumb is supported by gluten strands rather than by whipped fat and sugar. That structure makes the muffin closer, metabolically, to bread.
Cupcakes flip the formula. Higher sugar and fat, plus creaming and whipping, trap air and disrupt gluten formation, yielding a softer crumb and faster starch access for digestive enzymes like amylase. Emulsified fat droplets and dissolved sucrose change osmotic pressure in the gut and can accelerate carbohydrate breakdown, even if the calorie count matches a muffin. The result is a sharper blood sugar rise and a different impact on satiety and basal metabolic rate, all from a few quiet tweaks in the mixing bowl.