Figured it out kinda.
I opened up the .MLT in a text editor and removed some filters. BACK UP your .MLT before trying this!
Look for <tractor id="tractor0"
inside the <tractor tag are some filter tags.
I deleted everything that was a filter inside the area. basically delete everything that starts with <filter id= to the
After I'd done this one of my two tracks reappeared. The other still was black, however upon adding a new track and moving my clips to the new track the problem went away. I deleted the problem track after moving everything up.
I'll have to redo some filters probably but for the most part my work is still there, especially all the cuts etc. Hours of work saved!