First to say: I am a bait fisherman.
Second: I would like to try fly fishing.
Third: In my oppinion both methods are completely correct ways to fish.
There is much more bait fisher people than fly fishing (I think, based on a simple observation whenever I go fishing). This simply means that you will have many more people who will be doing unethical or illegal things on the water when bait fishing, because of proportion. If government bans bait fishing, I am almost completely certain, I will be seeing a lot of fly fishing people doing many different illegal or unethical things. Simply people who are doing it now baitcasting will be shifting to illegal fly fishing methods.
If you are using proper methods (short floating mostly), when bait fishing, fish (salmon) which isn't a baiter any more, will not be hooked in most of the cases. If you fish in a stream with a sinking fly fishing line, and "pull" your line through a scull of spawning salmon, you will be "hooking" on almost every cast. This is something I have seen with my own eyes. At first as I didn't understand fly fishing, I thought I should just throw away my baitcaster, buy fly fishing rod, and come back to river. After few minutes of carefull observation, I realized that fly fishers on the other side of river where snagging almost every single fish.
In my oppinoin when it comes to fishing for salmon in rivers, it isn't about bait or fly fishing, it is about how you do either of them. Maybe fish is more eager to go after a bait, but banning bait fishing on all rivers will not solve the problem. There must be done much more, and many different things to find a solution. Personally I do not think we will see a solution to all problems, and I just hope there will be some changes before we come to the stages of NewFoundland, or some other places, where people started thinking when it was too late.
I can not believe that government did cut hatcheries programs. This is the first thing that it should be back, and in greater numbers than before. Fish has so many predators (including us) that we simply need larger numbers to start with. Otherwise comercial, sport, and all other industries in connection with fish will suffer, including ordingary people who buy fish in the store. What do you think how much will Sockeye be in the store when they come back in 4 years (because of last year overkill, caused for whatever reason)?