The next beta version of TopoFusion will have 3D:
The track is displayed as a "roller coaster" using its own GPS collected elevations. This allows a nice visualization of the difference between DEM, barometric and GPS elevations.
Unfortunately, users will need to supply their own DEM data (it is available free from many sites). We're trying to make things as fast and intuitive as possible. An announcement will be made when the beta w/ 3d is available. Everyone's help in beta testing this feature will be greatly appreciated.