Unfortunately, as is often the case with OTA updates, the new build fixes one thing but breaks a few other things. In this case, the phone app is removed from the Sense 3.0 lock screen launcher and pick list, certain app icons get replaced by "generic green robots," and the sync icon won't get out of the taskbar (even when the phone isn't syncing).
These may not be as vital as the calendar force closing when you're editing an entry—assuming you use the calendar, of course—but an update that needs its own update is never a good thing.
Whether Sprint and other retailers will update the EVO 3D for customers who buy it tomorrow is unknown, but if you take yours home and are notified that new software is available, you may want to think twice about installing it.
Thanks, Puking Dog!
Update: An application update just became available that fixes the Green Hornet 3D movie, which was previously unwatchable, and puts an end to HTC Watch constantly syncing. [Sprint Users] Thanks, Tone Bone H!