I doubt the crank sensor and harness were even part of the issue, just sounds like a shop shot gunning parts into a car hoping that fixes it.

There is no fuel filter to change on your car anyway, it's part of the fuel pump itself and likely not your problem.

I would atleast remove the MAF sensor and clean it, and clean the throttle body if you can. A bad MAF can cause rough starting issues for sure but I can't say for sure that is the issue.