I saw a similar problem with 16b without being able to resolve this.
The first-level voxel-to-voxel analysis completed without errors. All the result files are located in the first-level directories. However the condition (rest) did not show up in the second-level GUI.

I am using conn16b with Alfonso's patch from http://www.nitrc.org/forum/message.php?m...

Any advice would be greatly appreciated!