Ok, r/funny just went public, and one of my comments re-appeared in my profile. So I am confident that what's happening is the deletion of comments isn't happen

Ok, r/funny just went public, and one of my comments re-appeared in my profile. So I am confident that what's happening is the deletion of comments isn't happening on subreddits that are private (as r/funny was when I ran my delete script). As soon as the subreddit goes public, they "re-appear"