It is a better plan but be careful - in the land of muffins not all muffins are equal!
Size does count and some muffins are very high in fat...so what seems like a healthy option can end up whacking you in the gut. Make sure your muffins are low calorie option types.
Instead of the first muffin why not try a piece of fruit like a banana or apple? They will supply you with the needed energy boost for your morning exercise quicker than a muffin would.
Great to see you thinking out your lifestyle...good work!