When I ran a script on puzzle 1992 to make hydrogen bonds, I saw strange bonds forming between residues on opposite sides of the tetramer, clearly physically impossible. See link for a photo.
I didn't write down between which residues this occurred, but next time I see this, I will save the solution and submit for the scientists to review.
If anyone else is having this problem, please stop your script at that point, and save and share your solution. I see that frood66 had this same issue, so it isn't a glitch on my own machine.