Reading the issue, it seems that one of the problems is a single directory with lots and lots of files in it, which is something of a pathological case for Git. Now, this could be "fixed" by splitting the files in that directory into subdirectories, but the one giant directory will still exist in all the past commits. So would this actually fix anything, or just keep it from getting worse?
In a filesystem, you can address the problem by reorganizing the directory structure. And you can do the same for future Git commits. But unless I'm mistaken, that colossal directory is stuck in the git history unless you actually rewrite that history, which would require everyone who cloned the repo to either rebase or re-clone the repo. Maybe it's not a problem because the cost is only paid when one checks out one of those old commits, which would happen rarely?
