Medium cluster jewel passive not allocated despite being in the json (Replenishing Presence)
When importing my character in PoB one skillpoint is always not allocated as you can see in the images. I tried four different cluster jewels and with two of them the Bug occured, but only in this socket. All of them should be in the attached get-passive-skills.json in the zip (Uncommented the output in the ImportTab.lua after the processing of the JSON).
Not bugged: Medium cluster with 4 passives and cold damage over time (Brush with death and Circling oblivion) Medium cluster with 5 passives and inc effect of non-curse auras (Among equals and replenishing presence)
Bugged: Medium cluster with 4 passives and inc effect of non-curse auras (Among equals and replenishing presence) Medium cluster with 4 passives and inc effect of non-curse auras (Among equals and replenishing presence)
Every cluster has atleast one additional mod. I tried to unsocket every cluster jewels but the large and the medium one needed to reproduce this bug and it still occured. Although the sample size is small I guess this bug is somehow related to a specific combination.

If I understand the data correctly, the passive point in question should be the "229" in the dict you get with "hashes_ex".
To try it with the import: account: nikvaro char: NikVortex
I am on 2.6.0 I am having similar issues but I found that my Medium Cluster jewels are not expanding so I am unable to slot a jewel in them.

I created a test medium with nothing in it so and that works though. As OP said, there must be something wrong with these jewel skills.
Sorry for digging it up, but it still occurse for me. My public account name: Lyvri Character with problem: SmallPrincess
Problem: Small Clusters arent properly allocated (mana reservation 2 nodes, with notable Introspection) even if they are in game allocated.
All of Small clusters are fully allocated in game, but in PoB:

Fixed by https://github.com/PathOfBuildingCommunity/PathOfBuilding/pull/7270