It could be an issue with the names of your minisite(s) for instance if you have any illegal characters in there like cyrillics, accents, symbols, etc. Also if you have two taxonomies with the same name or slug within one minisite, or even possibly taxonomies, minisites, and specific pages sharing the same names. In order to find out if any of these are the case, try creating a brand new minisite with taxonomy and items and make sure they are all new and unique and see if the same issue happens. That will help us isolate if it's an issue just with that minisite or a larger theme issue.
Ok I tried as suggested. I even created new wordpress installation uploaded theme and created minisite and taxonomy and few posts. Everything with completely different names and slugs. I used only english alphabet. The problem persists. I am kind of lost here.
Updated: I tried wordpress 3.7.1 and 3.7 and 3.6 still the same problem.
Please give me login information for the new WordPress installation and I'll see if I can replicate the issue.
You had the minisite set to be Excluded in the minisite setup screen which also hides it from archive pages. You have to include it for the taxonomy listing pages to work.
Thank you very much. It seems I haven't completely understood the instructions on that.
Last thing. I have some icons not showing correctly. I couldn't find those in the theme folder. I pointed them in this picture http://pandaprojekt.cz/wp-content/uploads/2014/03/Picture.jpg
Check out this FAQ which should help solve this issue: http://industrialthemes.ticksy.com/faq/1845
Thank you, this helped. BTW it happens in the Opera browser as well.
Best wishes, keep on doing good work, Great theme.