Answer to your problems is we could use a video of the noise or if it has any SES codes on...get those read and tell us what they are...

Questions...

1) Leave it where sat...mine never moves...ever. If you feel the need to then zip tie it or something.
2) WHAT!? You need the MAF or your car won't run...or if it does run it'll run like epic crap.
3) Go to exhaust shop, pay guy to cut it out and weld in a piece of pipe. It will throw a cat code on the dash (SES light)

I say change your plugs and wires...and possibly your coils/fuel filter...but you might just need a new MAF too.