Well, that's because you really don't have to connect the domes. I barely connect any of my domes at this point.That's simply not true.
A Basic dome gives you 60 hexes, but 2 micro domes give you only 64 hexes.
Furthermore: 1 Basic dome gives you 6 large building slots while 2 mirco domes give you 4 and 8 small spaces.
This means you can only have 2 large houses in one dome. Sure, you can have multiple domes with fewer housing areas but then you need more medical centres to keep the comfort threshold low (70 is quite high, especially in early game).
In my humble opinion this whole calculation crumbles to dust once you realize that you have to connect the domes.
Connecting is helpful to make use of service capacity that is not used in a single dome -- especially with low level service, for which the -10 does not matter. I have done it for a long time too.
But -- as I argue in detail e.g. here -- you really don't need to fulfill every desire, and one high-value service is worth as much as two low-level services. So one fully staffed diner or bar can already go a long way, and you really don't need every dome to have green comfort value.
It is also usually better to share work force via an out-of-dome building than via passage so you do not eat the -10 penalty. Polymer factory is a good standard option.
Ofc I cannot argue with aesthetics. Honestly, I wish arcology was not so expensive in upkeep, because I think it looks really cool as well.
Alternatively, something like this mod could make the basic dome more desirable: In my mind, a low-upkeep, early game spire that fulfills shopping, dining and food at 25 capacity would be ideal. Generally applicable, and 25 capacity for these common needs would be used even in a basic dome. Colonists use roughly 3 times as much capacity for the food need as for any interest.
But in the current state of the game, a spire slot in a small dome is simply rarely an advantage, especially in the early game.
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