Considering that it does this pause at the same place on two different copies, I'd bet that we could rule out the quality of your DVD blanks -- as well as any issues with Nero (unless it's picking up a corrupted sector in the VOB file; but if it WAS, Nero's pretty good about reporting it to you).
I had this same issue with REIGN OF FIRE, using the first edition of DVD2ONE, and making a movie-only disk. Out of curiousity, I ran the movie through IFOedit (the movie-only function), THEN recompressed with DVD2ONE. Guess what? The problem disappeared. Checking over the files to try to figure out why it was a problem in the first place, I discovered that there was a layer break in that position on my original files.
I haven't backed up my copy of LOTR yet, but I'm betting that this is the problem you're having.
So, for my recommendation, I'd say to visit Doom9.org and download (it's free) IFOedit, and read through the guides posted on that site. I now run everything I back up through IFOedit (even episode disks, since I normally strip out unwanted audio tracks to save space). Because IFOedit always removes the layer breaks in whatever stream it processes, the consistent result I get is that the pauses are gone, each and every time.
Rene's made comments about the nature of layer breaks elsewhere (I'll look, and see if I can find it so I can paste it here), so he/she* is aware of the issue. Guess we'll have to see what the future holds, eh?
*Sorry, Rene! Didn't want to assume your gender, since I know members of either sex with the name "Rene!"