Noticed this in one game, after a save.  Any new logistics increasing buildings did not provide + logistics.   I could settle with -1 logistics and it went to 0, so other things were calculating correctly, but barracks and command posts were not increasing logistics.

Something triggers this, because it works other times.  My guess is it either involves summoning or a save/load issue.  I was using the Guardian so that might also be a trigger as well.

Another possibility is going into negative logistics, as a logician administrator got killed at some point , lowering mine to -1, then a founded a city to bring it to 0.