I have the exact same problem on my 2009 mini cooper s (r57 convertible) n14 engine.
ive been looking everywhere and couldn’t find a single post the went through some trouble shooting to narrow down the problem.
i recently bought the car a couple of months ago and started driving it ever since. I fixed all the oil/coolant leaks, replaced the timing chain and the car runs great. Recently the car is making a vacuum sound around the valve cover and now i have the same to codes you have. Car runs great but at idle the rpm slightly move up and down but nothing to crazy and the car is still drivable.
Saw your post but with no update. Did you found out what was causing the problem?
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Quick Update -- I tried the Seafoam today, while the car was running put a small amount into the PCV hose, let it sit for 30 minutes, then started it... blew out a lot of white smoke until it was clear. Then I drove it for about 10 miles with turbo on and off, it drove like a champ, I noticed a little bit of a (very slight) performance enhancement in the smoothness of the pickup. It appears that when I did that it threw a slew of fault codes, so my guess is that it might take a couple days to clear out. Regardess, the car runs great... just can't figure this out!
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HPFP was what I finally ended up replacing to kill that code. Wasn't cheap either
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I've thought about the HPFP, but I was assuming that if it were the HPFP, then I would easily have some symptoms in performance. Especially related to the proper amount of fuel being pumped in. But, I'm not having any performance issues related to "fuel intake" that I can observe. When you replaced yours, were you suffering from any problems with acceleration, or not getting enough gas, or anything like that?
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You could take a look at the plastic pipe that goes from the intercooler to the intake. It becomes brittle and cracks. But I doubt it would cause those codes. It does sound more like a vacuum leak.