I encountered a similar problem with version 0.31 : in clusters of identical buildings, many of them don't benefit from the correct adjacency bonus. It appears to be random : some buildings have no bonus at all, some buildings only have a part of what it should, and for some the value is correct.
It is not a display-only bug : planet ressources are generated according to the bonus as they are displayed.
I also found a case where the bug is in reverse : I benefit from adjacency bonus where there should be none :
The selected farm, in the middle of nowhere, should be level 0.