Yea, it can. Especially if you stay up for longer periods of time than you are used to. Your eyes are like any other part of your body, they need to rest, and may become tired, over used, strained, etc. You may also experience slight swelling of the eyelids. You could try a cold
compress, (a bag of ice wrapped in a towel, a chemical cold compress, frozen spoon, or frozen spa mask) applied over the eyes, it may reduce the inflamation and possibly make you more comfortabe, however- do not place anything extremly cold directly on your eyes, and if you experience more than very mild discomfort, stop doing it.