Win10 Pro 64 bit; AMD Ryzen 2700X; Nvidia GTX 1060 6GB; 32 gigs RAM
Broken: hash d1be30f (buildbot build May 4).
Short description of error
In a situation where you have multiple rows of faces that face each other across empty space (with other areas where they face away from each other). The bridge tool (even with loop pairs checked) is unable to give priority to the direction the normals are facing. The result of this is that instead of getting nice bridges among the multiple rows of cubes, the tool produces faces that overlap and have zero area. As hinted, the loop pairs checkbox in this case does not do anything and the result is the same.
Exact steps for others to reproduce the error
Open the .blend, invoke the bridge operator (the result is the same whether or not "loop pairs" is selected.
An additional note; I submitted this issue years ago, but it was never fixed and I couldn't find my old report. If the bug is not going to be fixed, then just close this as a todo item or with a "won't fix" tag.