Hmmmm, no stinking at all, no. My house and tank dont smell much like the ocean like I was expecting it would when I added almost 250 gallons of water to a relatively enclosed area.
I think most hobbyists have their tanks covered, at least every tank I've ever seen here in Alaska has been covered. I really only hear about open topped tanks while reading on Reef Central, but most of us here arent the average hobbyist and do things "to the extreme" in a lot of cases.
Really, if putting lids on trashed a tank, I dont think manufacturers would get away with building the tank lids
It isnt as if it's an air tight seal by any means, it's just glass sitting on plastic, but it's pretty tight I guess.
I leave my glass deck door open most of the summer and just leave the screen door closed to keep the killer misquitoes out, I have decent air flow through the house. No humidity problems here, but in the winter when I close the doors I have to run a dehumidifier almost nonstop. It is a nice trade off though as it puts out heat while it does it's thing, so I dont have to run quite as much heat in the winter as I would if I had the dehumidifier off.
Anyway, I dont think I'm harming my tanks at all. I inject ozone through the skimmer as well which breaks down into nice clean O2 almost immediately. I run an ORP controller which in a roundabout way measures the oxygenation of the water, my levels are always very high, 370-400 which is near the top of what is safely recommended. Some sources even consider anything over 350 as too much oxidation potential. This is with the tank covered completely and just a skimmer running. That skimmer injects a LOT of air, I'm sure it helps work out CO2 and put in O2.
Long story short, I'm not worried about it. The tops keep my humidity down and my fish in. I have had LOTS of fish in there in the past, if I was dealing with a high CO2 and low O2 concentration it would have been a big problem with the large stocking list I had.