Engine Clicking And Tapping Noises problems of the 2006 Volkswagen Jetta

While driving on the interstate July of 2015, going about 70 mph, my 2006 vw Jetta shook and lost all power. No check engine lights or any lights at that matter came on. Prior to this I would notice that taking off sometimes the turbo wouldnt kick in and I would have absolutely no power while getting up to speed. This also happened on the freeway and once off of the freeway I turned the car off and then on and was like nothing happened. After I lost all power the second incident, I took it into the shop and was told that 2 cylinders were completely destroyed. Had to spend 2400 dollars to have a new motor put in and now the thing is having problems again. Battery light keeps coming on and off within a second and there is a loud ticking noise while idling. Sounds like a loud vacuum in the engine compartment while driving it. No check engine lights or temperature gauge increases are present. While researching recalls I noticed there were some for the year of my Jetta so wanted to see what is going on.

At approx 80-90k I started hearing a clattering noise from the engine and extra noise when idling. Also, the car has a hard time shifting (automatic trans). After taking the car to a mechanic, I was told that it's the dsg dmf coming apart and rattling. After doing some research, I find it's a common problem. It started happening shortly after my car went out of cpo warranty, which expired at 74k. I didn't really pay that much attention to it until it got worse. This is a 06 tdi mkv with auto dsg, brm engine. Also experiencing difficulties with soot in fuel filter, likely due to faulty seal in fuel injectors under cam shaft. Once again, common problem according to mechanics and online forums on this model. There's a recall on the dmf for this model in australia, needs to have one for us.