Imagine having South Africa spawn in the north.
Yeah it is annoying when certain country or civilization names are just damn awkward and there is simply no way to replace them.
Ghana, awesome modern day African country to put in the game. Randomly named after completely and utterly unrelated African civilization located thousands of kilometres away millenium earlier - this itself is imo rather questionable choice.
So you can never have both in the same game! It is still better than, iirc, its original purely eurocentric colonial name of "Gold Coast".
Its neighbour is "Ivory Coast" (to make it even more awkward its official name is often specifically French "Côte d'Ivoire"), good luck introducing the country to the game, it generates in the middle of continent with no ivory. No native name
Islamic Egypt led from Cairo (doesn't matter if medieval or modern). Civilization almost completely different from ancient pagan Egypt in almost everything, usually made as part of "Arabian" civ and nobody bats an eye. Still, definitely deserves a separate slot apart from "Arabia" civ with Medina etc, it has always been a very distinctive part of Islamic world, seat of Egypt - centered Islamic empires. Too bad, it is simply named "Egypt" and we can't have two Egypts in the game! On top of that, I would also argue that
Greek/Christian Egyptian civ led from Alexandria would deserve a third slot sometimes...
Greece has a similar problem, where you can't ever have a modern (last 200 years) Greece because you can't have two Greeces and once and they are so different putting them in one civ feels ridiculous.
Then there are The Philippines. It is just such an awkward name in a game like this. It is a plural name of a very multi - cultural archipelago of islands named after a European monarch whose empire brutally subjugated them. Filipino themselves are mostly fine with this name and they have built their common identity around it - though there
were indeed attempts to change the name to native... And there is none which wouldn't favor one ethnic group over another. But I just can't get that awkwardness out of my head when thinking of "The Philippines"
inland empire next to Spain (who actually is leaded by Philip II in civ6 lol) in the context of a game.
Charlemagne. Awesome historical character, very important civilization which you can't name 'France' or 'Germany'. Your choices are to name it Franks (Frankish) which sounds almost identical as France (French), especially for non - Europeans. Or to name it "Holy Roman Empire" which is simply terrible in countless ways (especially when it is modern secular republic next to modern Roman Empire). Or give such civ some artificial stupid dynasty name.
Polish - Lithuanian Commonwealth (which was de facto Polish - Lithuanian - Ruthenian/Ukrainian state). Awesome civ, good luck with the name. You name it Poland - very undesirable, you name it Poland - Lithuania - very awkward (and is capital in Poland or Lithuania, who is "dominant"?), you exclude Belarus and Ukraine - terrible, you name it Commonwealth - ridiculous.