i think that every mutant with telepathic and telekinetic abilities could be explained by the fact that their brains are more genetically evolved than simple human beings, as we only use about 9% of our brain's abilities in life.
Some people tried to kinda explain Storm's powers, but they're way complex...actually i can't think of how could she control the weather...her molecules or mind must be very powerful for that.
About Rogue, if she has cells with blank DNA, wouldn't she be no color in skin, hair, etc as the DNA gives us our body characteristics? What about her height? wouldn't it change everytime she touched someone? she would be more like Mystique, i think...
Speaking of Mystique, i think her mutation is easy to explain too. She just can change the structure of her molecules to appear like any other person or object.
About Angel, his power is strange, coz you can't fly only coz you have wings...actually birds have many other structures that allow them to fly, like "air pockets" (dunno how it is in English)...
For me, mutation has everything to do with our brains, as we still don know how powerful it is. People who have stigmata is an example. I knew a girl that could collapse or get a huge fever anytime she wanted. People who don feel pain are already known too...