One problem related to engine clicking and tapping noises has been reported for the 2006 Honda Pilot. The most recently reported issues are listed below. Please also check out the statistics and reliability analysis of the 2006 Honda Pilot based on all problems reported for the 2006 Pilot.
While driving my vehicle on the highway at approximately 60 mph I heard a ticking noise for about 5 seconds then it went away. Shortly thereafter my vtm-4 light came on and shortly after that my check engine light started blinking. This caused my car to stall out at a traffic light in a 4 way intersection at 11pm. With the help of a person who happened to be walking by, the vehicle was pushed into a restaurant parking lot. After getting it towed to a mechanic, I was told that the spark plug in cylinder 2 shot up out of the cylinder, damaged the threads and exploded. I have been seeing this issue on many forums with this same exact problem. Now I am without a vehicle for an issue that has been common with these engines but not addressed as a recall.