So I use Audacity because it's free. What I do is export the audio of the previous file with mine. I then delete the track that isn't mine, and export my isolated track that way. How it doesn't line up then is besides me. Any suggestions?
Whelp, this is why I suggested TNG post every track he starts with an audible "Click" so that I can line it up. Because beyond that, Audacity is just barely better than nothing. Things substantially better than nothing, and also free?
Use both. Figure out which one works better for you. I'm gonna guess Reaper; it has a lot of proponents and Pro Tools Free is even more cut down than Pro Tools, which is virtually useless compared to Pro Tools HD. Which costs an eye-popping amount of money for someone used to "free." I have plugins that cost $900.