I've experienced this a lot of late, though it normally goes away within 30 seconds.

Referance to similar issue from a fellow player: Best. Bug. EVER!

It's generally a latency issue. Things don't load in fast enough.

Though, I've run into a mission or two that have genuine holes in their walls.

So the spots do go all the way down....

I usually get this with my Orion on the Character select screen lol

The Federation has been experimenting with phase shifting cloak technology.

Man... I'm such a geek-nerd... That's my PC background pic.

Course, I photo-shopped it a bit so they look a bit more...ummm... Lifelike.

that kind of thing happens to me all the time at ESD, in the form of me 'dropping' through the floor when i beam up to my ship whether it gets fixed or not, i wouldn't mind. because sometimes i find it funny