I can tell you this, for sure. DoubleTwist adds another playlist everytime you sync. Your only option is to manually delete the older versions of the playlists. DoubleTwist is actually a bad syncing program, as of right now.
I don't know about the rest of the programs you're using.
I instead use Missing Sync for my music, and it will update the playlists on the phone, not add a second one.
Also, if you're (inadvertently) added more than one version of a playlist. Your phone will see them all, no amount of refreshing will fix that problem. It sounds like your problem is syncing.
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