Not 100% if this will work, but it def sorts out the cut/duplicate tracks etc.
Download.... Hidden Cleaner.
Then drag this to the Bottom toolbar of your mac.
Then when you do anything with your SD cards or memory sticks, instead of ejecting them, drag them into the Hidden Cleaner icon.
This will clean/tidy up the crap on your card/stick.
Download it, plug the SD card in the mac, then drag the SD card icon on to the Hidden Cleaner icon in the toolbar.
Then you can take out the card. (no need to eject)
Give it a try in the RNS.