Follow up: I believe I found the problem. I decided to take the airbox off and look for issues with the fuel system, and when I got the airbox bottom section removed I noticed the throttle bodies were not seated correctly. I had difficulty putting them in the rubber pieces they sit in, and it looks like I over tightened the clips and squeezed them out of position. So, two lessons were learned: first, spray some WD-40 on the bottom of the throttle bodies so that they slip into their fittings (thaks dad!). Second, very little torque is required to tighten the clips that hold the throttle bodies in place.
Engine note has returned to normal and optimism is high that all is now well.