That is correct. I already brought this up all the way back in February. But the original explanation stands. This is a change in either the .exe file or one of the .dll files. And as it currently stands, there is probably only one modder (dimitrius154), who is capable of making changes to those files. And there are so many other actual fixes bundled into them, that it's not really feasible to recompile them just to remove one thing.
While almost all the files were custom changed and made "vanilla compliant" by Flix, the .exe and .dll files for the PFP were mostly taken from the CM Patch as they were.
And actually, the Monolith text in your screenshot used to be the biggest offender and the reason I originally posted it. Because of that, one change in PFP 1.3 was changing the original map text "Activated Resurrection Monolith" to just "Monolith", to reduce the map obstruction.
There are a couple more things which have been changed in these files that are different from vanilla, which are still present in the PFP. The ones I know of:
1) As you mentioned, the object map names.
2) The possibility to teleport to any ports or hot air baloons, as if they were normal teleporters .
3) Mounts auto-summoning after game load and the possibility to summon mounts into caves and underground.
4) Animation blending speed greatly increased. It makes transition animations, like when you press SHIFT to assume a defensive posture, nearly instant You can revert this by using the vanilla s2render.dll (I'm playing like that), but you lose a couple graphical restorations along with it.
The chances of these things being changed are very low though. But none of the above is that bad and the worst one (4) can be restored at a small price.
As for other differences, there is also the physics particles change. In the vanilla, they were probably bugged and spawned with 10x higher density than intended. PFP changed it, but it's still a difference. If you want the original (where leaves, pebbles and sparks fly everywhere), just replace the physX file in the pak folder with the vanilla one.