Thanks for the file link. That does address some issues I have, and I'll have to play with it some. Since you asked, primarily I have two problems:
1.) Flight, as presented, only says that it allows you to fly 3 SIZ per level at 500 meters per round. It does not say what happens with additional levels beyond those necessary to compensate for the character's SIZ. So if I'm SIZ 12 and I take four levels of Flight, I can move 500m/rd. What if I take a fifth level of Flight? How fast am I now? Is it an additional 500m/rd? M&M's flight is much simpler and also provides more capability.
2.) Super Speed is not about super speed, it's about combat movement, affecting move actions. Super Movement also doesn't cover it; SMv is about types of unusual movement. The document you linked has a "Sprint" power that covers what I'm looking for in a manner similar to Champions would usually do it, with movement doubling. M&M simply has a Speed power that makes use of its measurement chart to provide simply-calculated, speedster-appropriate movement. Using the power as presented in the BRP corebook, am I supposed to represent Flash-type superspeed by piling on extra move actions at a cost of 20 points each? That really isn't what I'm looking for.
As for translating damage, I'm fine with the energy projection powers as they are in BRP. Those map pretty decently with how M&M does it. It's mostly the movement powers that bother me.