Fixed, I hope it will help someone. Products were assigned to the parent category "Produktai" and child category "Baldai" when I unassigned them from the parent category, then the category appeared in the layered navigation.
I stuck with a problem that some of the categories won't show in the layered navigation. An anchor is enabled, re-indexation and cache clearing made many times, changed the theme to default Luma. Strange that 3 of them are showing. I thought maybe problem with the URL rewrite because I made product imports. Truncated tables and also didn't help."Use Parent Category Settings" set to "No" for all categories. Also, I tried to enable the option "Flat category", then re-indexation and cache flush - no working.
Solved! Go to Solution.
Fixed, I hope it will help someone. Products were assigned to the parent category "Produktai" and child category "Baldai" when I unassigned them from the parent category, then the category appeared in the layered navigation.