Music and skipping problem

So recently I was asked to make a flowing soundtrack. One entire continuous stream about 3 hours long. Upon exporting I have had two different problems. 1. When I export I get and L and an R. Obviously Left and Right. I can't place both on the computer, as the L and R will be different tracks entirely. I would need them together. 2. When I export it in general, the music has the slightest, yet noticable skips. I have no idea how to fix this. I have tried different takes and nothing comes of it.

Thanks

bodingus