That run isn’t and never has been considered the marathon WR for that and other reasons
In fact Kipchoge's legal world record (the 2:01:09, not the 1:59) had pacemakers for the first 25km (of 42.2).
Guinness recognises it as "Fastest marathon distance (male)" and "First marathon distance under two hours" despite these factors.
Kipchoge currently has the WR for both.
The whole controversy for the "fastest marathon" is they kept cycling fresh/new runners during the run for Kipchoge to draft off of and conserve energy. These pacers (like the aforementioned runner in the HN article) provide an aerodynamic boost.