He's not saying those bigger issues are all on Charlie - instead noting that instead of picking on the small stuff - maybe we should be looking at some of the bigger issues that are developing. I don't think he's wrong.
From what I've seen and more importantly heard from Charlie - I do question whether he has the proper mindset to lead this team forward. While he seems like a great guy, he seems to have a very old school mentality - one I hope doesn't propagate through the team and organization and set us back.
We've read articles from other organizations who didn't fully embrace the advances statistics until very recently (Barnhart talks about how the previous Reds staff didn't embrace it here - https://blogs.fangraphs.com/sunday-notes-tucker-barnhart-is-embracing-data-because-now-he-can/). It appears the organization that were behind the trend were generally unsuccessful.
The FO has seemingly embraced players who hit the ball hard, but have no patience or approach at the plate. They obviously felt there was value to be had with that type of player. The recent increase in high fastballs and more breaking balls out of the zone may expose this type of player (even more) - rendering those players useless. It appears there are some flaws in the system that need to be addressed.....ones that are significantly more important than whether Charlie is pinch running for Vladdy.