I've had trouble with swords getting under the plates with the roots. The biggest issue I've had with my 55's ug system is that I somehow had some substrate that was finer than the grates. It worked its way under the plates and then traveled over and plugged up a lift tube. It was a pain to clean out, but the tank settled back down after a day or so. I do gravel vac with my weekly water changes and that seems to get everything cleaned up. I'm pretty heavily stocked and my Nitrates, Nitrites, and Ammonia have been 0 since the tank finished cycling.
I also recommend using a power head for any setup over 30 gal, but anything less than that and an air-pump driven system will get enough flow through the tank depending on how many lift-tubes you run. There's probably a calculation for the amount of airflow needed through the lift-tube based on the distance between tubes, but that seems oddly technical for one of the most old-school of filtration techniques.
The biggest issue I've seen with loss of effectiveness is when one tube gets overbalanced (i.e. a lot more flow than the others.). If that's the case, the heavy flow tube can start sucking water through the other tubes and bypass the gravel. Usually this happens when someone puts a 100gph power head on one tube and runs bubbles on another tube 10 inches away. Additionally, if you are using a bubble-driven UGF, you're ruling out the use of CO2 injection for plants since the bubbles will just carry it up and away, although there's an argument to be made that if you're investing in CO2, you probably are willing to shell out some cash for an expensive filter and thus make that point moot.
My biggest critique of UGF though is that there is a significant footprint in the tank that can get in the way of aquascaping. Those darn lift-tubes take up valuable space that could be used to build rock caves for my Krib and he just hasn't forgiven me for that. I'm hoping to upgrade soon and I'm going to go with a canister filter for that system, but I'm also going to start getting more serious about plants.