1) Do not do the extra step. No Mass - Energy - Mass transfer. Send the "fermions" of the people directly (people would not survive the acceleration, but electrons would). You need two devices of course, one that atomizes people and one that deatomizes people. How can this be accomplished? No idea, otherwise I'd be a billionaire. But the same can be said about any other answer. How save would it be? It depends on where you are "teleporting". If there is stuff in the path, this would be problematic. If you are doing this in vacuum - this isn't much of a problem. I also do not think this is any more of a stretch than Mass-Energy stuff.
2) Instead of transporting people as energy, only transport the information needed to reconstruct them. If you want to go into Science Fantasy, you can combine that with the idea of a conscience that can be transfered into a computer and downloaded again. You would not transport anyone directly via energy but just what is needed to reconstruct that person. So in principal you destroy one body (or keep it for later use) at one location and recreate (or reactivate) that body in another location. This would most likely be safer than normal travel.
3) We are dealing with non-hard science here anyways, you can have your wormholes and portals behave any way you want. The idea generally used in Sci fi behind such travel devices is that they are a shortcut through space. Why they would be fixed to one location and why you couldn't make the appear anywhere you want is beyond me - since they are fictional anyways. Most people do that for story reasons, if you can just open portals anywhere you create problems. This is literally as safe as walking - or - alternatively as safe as you want it to be since you make up the rules.
4) I already stated this in the comments (sort of): "FTL drive". Have some kind of machine, maybe a space ship, that can travel as fast as you wish. Maybe inside a warp bubble. Maybe in hyperspace. Maybe in whatever since this is all made up make-believe. You decide how fast they can accelerate with that thing. You can decide how fast you can go with that. You can make up a train that goes from Earth to Mars in a second because "hyperspace".