I've been going through some likely suspects and trying to figure it out..no dice so far but I will let you know if I do figure it out!
As a side note..or perhaps not. I have only had two transport missions vs. a decent amount of the others. Could this be related to the missing tech?
I see that I cannot research this (Fuel from Krastorio 2) hm..Advanced Oil Processing is not a prerequisite BUT it is locked by MSI.. Hm. https://ibb.co/CVqCGqM
annd as a random FYI; I had to disable https://mods.factorio.com/mod/Barbed-Spikes as the spikes were continuously spawned during "chase" or "wave" sequences in quests. Probably related to the way that mods handles the spikes; but just thought I'd mention it :)