I've never pulled any really good ones, but I'll tell you two stories; one of my favourite that was pulled on me (even if it did royally piss me off at the time, I had to admit it was funny) and one very long-term one that I'm planning on my latest server.
The first was on our first server ever, in Vanilla. It was only maybe a week in. My friend and I had more or less finished carving our base out of the mountainside, and it was getting super late for me, but I really wanted to finish the nether portal off since I finally had the materials. I set up the room, added an iron door, built the portal and lit it; let him know that the portal was finally finished and logged (we worked opposite shifts at the time.)
It was my day off, so I got up and logged onto the server soon after. First thing I wanted to do, naturally, was check out what laid beyond the portal, so I headed through. Ryan had built a little portal room and put a few amusing (to him, anyway) signs around the area; beyond that, there was a bridge leading to another room he'd built that would eventually house our transit hub; the portal had actually spawned pretty high up.
So, I took a minute to look around, then headed out across the bridge to see what he'd put there. Most of you have probably guessed the rest of the story by this point, but to make it short, he'd also taken the time to slap down a pressure plate on the bridge and wire up some TNT. In my just-awake state, it took me a good minute or two to figure out why I'd suddenly been blown into the air and then gone down for a crash landing below.
Ok, so now, my plans; because none of my friends read these forums, bwahaha.
My basic idea is that I'm going to be making a self-enclosed, highly-technological base. I'll be ready to start the basic build with MFFS soon.
Now, as many tech players may be aware, both MFFS and RotaryCraft (which I have to do a lot of research on in the coming days) come with a variety of defensive devices, which allow you to whitelist players. And the first thing anyone coming to my base is going to run into is a simple reinforced door, which will very likely have a CCTV and a player sensor hanging out nearby. This door will have a very simple warning, along the lines of "Danger! Do not press this switch! Do not open this door!"
Knowing my friends, who heavily resemble Gir in some respects, this will of course be irresistible.
Unfortunately for them, so will the heat ray/railgun/laser gun/whichever viciously powerful turret I position behind it, which will rather unhelpfully be triggered when the door opens.
I'm planning to extend this theme over much of the base; traps shall abound, all of which require the player's active participation in their own brutal devastation.
I'm rather looking forward to it, and I'm going to see if I can record any fatalities for posterity.