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I don't have any problems with the last issue you've got since I use my keyboard to fire my powers, but I like all of the ideas presented 
http://www.fimfiction.net/story/36641/My-Little-Exalt
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all these would bee neat features to have. Not sure if I'd use the Snap one, but the others I'd be using all the time.
Ooh it feels good to be back. I haven't been on the forums in a while.
Anyways, whatwith the game's Architect inspiring so many suggestion posts, I felt now was a good time to break the monotany by suggesting a few quality-of-life changes for the game's windows.
All the suggestions here are for options that could be turned on or off, and a short description was provided. A couple of them are inspired by some programs like Flash or Photoshop.
Lock Windows
When on, this would lock all current windows at their locations, rending them unable to be dragged by any means.
This would be a bit problematic if new windows were being added or changed a lot at any given time (such as during a new issue's testing?).
Snap Windows
Similar to a feature that Flash, Photoshop, and other programs have, which is called Snap to Objects. It's sort of difficult to describe if you've never experienced it before.
Whil active, when a window is dragged near another one, it would try to align its edges with the second so that no extra space was left between them. If the windows' corners are near as well, it would try to "snap" itself so that the two formed a single, solid side where they met edges.
When resizing a window, and it is next to another, it would suggest you make it the same size as the other if you dragged the size close enough.
Lock Tray Numbers
When active, it would stop the Power Trays from changing which set it is in. (From personal experience, when clicking a power next to the tray-changing button, lag can sometimes meddle with the situation and instead of queuing the power, it changes the tray number instead.)
Any more suggestions are welcome, too, of course. Sorry if I wasn't descriptive enough.