With 325 holes in mine, I have never thought about plugging them? I can see the utility. You do have to be careful when working around that many holes. Things fall through, anything pointed will catch and you have to be aware of your fingertips when sliding things, but you get used to it.
I did add a 32" extension a couple of years ago and left it blank. There have been a few times where they would have been nice, but it's right over my hardware drawer and I want to keep the debris out.