I have 2.5.1 but i'm still getting the behavior described by myself and the OP.
Alt+RMB doesn't work if you have something selected that uses the new handles, and the move single-direction axis doesn't work on the move gizmo if the sprite is big enough to cover it. I found that shift+clicking on the axis with the move gizmo works, and that helps to fix the latter problem, but it's still an unnecessary step. The alt+rmb zooming is the bigger issue for me, esp when the whole screen is covered in sprites or widgets, because there's no quick way to deselect one.