I've updated the server and plugins to the latest 1.4.7 Bukkit recommended build.

Before the update, Bukkit itself was having issues with Nether portals - it would just convert coordinates and then drop you into the other world instead of checking for and creating portals if needed. I think it's working now, but I'm not entirely sure. Just be sure to test new portals by entering them with empty inventories before actually using them, and expect to be dropped from up high, usually into a lava pool. If it doesn't do that for you, lemme know here.

Also I've been playing on another server and there's some ideas I want to steal from them and use, but I'm not even sure if it's worth it since that server's built for 100 people and we can only do 10. :x