Like Dunster, I rarely have issues but we both have Innova's. Did you go to Jamie Wallen's youtube video posted last time you sent out a plea for help on this?
http://www.youtube.com/watch?v=Q1mRhcquZTM
Loops on the bottom almost always mean your top tension is way too loose (or bobbin way too tight) Have you been using cotton thread? You may have a wad of lint lodged in the bobbin tension spring. And that could happen at any time during the quilting process and throw your tension out of whack.
If I were you I would completely get off all cotton threads to eliminate the lint issue. Switch to polyesters, at least until you are confident in all aspects of your machine.
Maybe you would benefit by trying magnaglide bobbins from Filtec.
http://www.bobbincentral.com/
They help alleviate backlash issues which may be what is happening when you change directions. However, it shouldn't be happening every stitch in one direction and not the other, that makes no sense. I am sorry you are having so many issues.