A lot of those points mentioned are not really "deviating from pnp" in the sense of changing the ruleset. It is pointing out limitations with the AI (or coding in general from back then, leading to some abuses like the wand recharging). While there are definatly changes from the pnp version to the game version to make it a better flowing CRPG, this is just nitpicking. "Roleplay limitations" can be considered to be a thing for literally every adaptation, it is very present in BG1 and 2, IWD, NWN and 2 and very much so in BG3 too.
This list feels kind of a case of just looking for stuff that might differ, to make a point. if you go look for stuff like this, you will find it, with pretty much anything. (Hence it being nitpicking, and kind of in a vaccuum/out of context too)
