I hope that helps as it always seems like a long shot from this distance.

If not, if I take the knocking part out of the story or try to put both together because I don't know when that happens, you might have a timing issue. A bad knock sensor would cause it all under acceleration.
The engine should be able to run on 89 octane or better with out a knock but if you are running a lesser octane fuel the knock sensor get to be even more important. This is a CPS engine, which means, it's a little more sophisticated or tightly tuned around the knock sensor and the ECU. No basic timing adjustment to get out of whack except for the timing belt tension.

Also I thought about the FPR for a brief second during the last post. It needs to provide extra fuel under acceleration or the mixture runs lean. When that happens the timing has to compensate to prevent pre-detonation.

Maybe if you could explain when the knock happens this will help other posters narrow down the hunt.

Just remember, we're are all "remotely influence" by your observation and descriptions. We play it back in our guessing.
(:-)

Phil