Doom has a very great story, but unfortunately also massive inconsistencies.
1. Argent Energy: According to Doom 2016, the primary source of argent energy are the souls of tormented wraiths. Eternal now tells a completely different story, that argent energy comes from the souls of the dead + wraith energy created in huge factories (it also tells that with the fall of the wraiths, agrent d'nur loses its battle between hell because they have no longer wraith energy. So Argent energy can never be created?). There is no clue how the two versions are connected.
2 Icon of sin: In Doom 2 the slayer kills the icon. After the events of doom 64 (which are placed after doom 2) he gets to argent d'nur, where the war with the demons begins and from the heart of valens son the icon of sin is born. Who was the icon then in doom 2? You might think there are two icons, but khan maykr says she will "resurrect" the icon, so it must have died before (which points to doom 2, but at this time, the icon was not created).
3. Spectre: This is only a small thing, but in doom 2016 it is mentioned that spectre originated from genetical modification by the UAC. in Eternal however, it is said that they were created by priests.