(Mark made me do it.)
It was the nicest bug report I have ever gotten. I felt obliged to release a fixed version since I've known about the bug for a month and wasn't ready to release 3.2 yet.
The only difference between Lyntin 3.1 and 3.1.1 is the fixed #config command when you don't have any readfiles or moduledirs set at the command line. Well, that and I adjusted the information in #version as well so we don't go calling two different releases of Lyntin by the same version number.