The hooplah I made over the 'root hole' was for one simple reason: once your phone is rooted, it's far easier to
keep it rooted. Once the 'hole' is patched, it's significantly harder to regain root access.
The dev community will generally have a rooted version of the stock update available moments after someone gets their hands on the update files. As long as your phone is already rooted and you've got the 'custom' recovery imager installed, this works very well.
If you happen to install the stock updates, and Sprint/HTC happens to fix the bug used to gain root access, you'll have to wait for someone to find a new exploit to gain root access on the new software. Chances are all the devs that would care are already rooted, and don't have much incentive to look for this - meaning your wait could be quite long.
[edit]
To throw a little perspective at that, it took over 3 weeks for someone to find an exploit that could be used against the current software. During that 3 weeks, the
entire might of the Hero dev community was focused on this task. It was pure luck that an exploit was discovered
quickly that could be used, and now all those devs are happily rooted.
I'm not tryin to be a pusher 'er nuttin, just sayin'