You can add me to the list. I have STLE # 012 and I have had this problem from day one but it's not all the time. Sometime it works like it should and sometimes it will hold the second ball. It doesn't matter if it's a soft or hard hit. I have seen a hard hit knock the first ball off the magnet and the second ball stops on the magnet.
I haven't tried the twisting wire fix yet. I have been keeping an eye on this thread to see if Stern ever admits theirs a problem and what fix they come up with but I am not holding my breath. If their's no official fix by the time they release the new code then I guess I will twist my wires.
I was playing tonight and my red DMD display developed the dot out vertical red line syndrome but that's another story.

They have these at Radio Shack. They show in stock at my local store so I'll check it out and give it a try.
http://www.radioshack.com/product/index.jsp?productId=3012599

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I have been real busy and haven't had a chance to drop by my Radio Shack. Well I did yesterday, had some time and went down around 8:00 PM and the place was closed. The sign on the door says they close every day at 7:00 PM, WTF I don't know when that started, Radio Shack has become almost worthless. Maybe tomorrow I try and drop by again.

Mine is Star Trek LE #012 and I have had this problem sense day one but it only happens randomly and not very often. I did buy some ferrite cores from Radio Shack but haven't installed them yet. I haven't even raised the playfield sense the day it was delivered so it's only been open once. I decided to wait till the new code release to see if that had any effect on the problem or until Stern acknowledged the problem and a fix before I tried twisting the wires sense it would seem it doesn't work on everyone's game.

If the problem is caused by residual magnetism then it might. I also thought about trying the same thing.

Ok, here's an update on my game,Star Trek LE #012. My game is still the same as the day I received it. I have only had the playfield open one time, the day I set the game up so it's factory stock under the playfield. Most of the time the magnet worked like it's suppose too but once in a wile the second ball would stick and only release when the timer ran out. With the new 1.5 code for a wile it seemed to be working but then it happened, I had the second ball get stuck just like before. After a wile another ball got stuck but this time something different, the game went into a ball search mode and it appeared the solenoid under the ship might have fired and knocked the balls loose so it appears it's still a problem. I still think I'll wait it out to see if they try another code update fix before I try any of the so called other fixes.