Are there any major cities in Golarion, Where a Kobold could function normally, without the need of disguising himself?
depends if they're above or below ground I'd say - are you assuming above ground? adventures mainly have them below ground
Kaer Maga, probably. It's something of an anything-goes place.
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Cosmopolitan Darklands cities could harbour them, as long as they aren't drow-controlled. Then they'd find themselves enslaved like svirfneblin.
Depending on what PFS scenarios you've played, you could have kobolds in the streets of Absalom without worry, but some of them might still like to travel in disguise, if only to trick everyone else.
I currently have two kobolds in Sandpoint in an AP I'm running, and while some people are still afraid/suspicious of them, Brodert Quink really likes one of them, and Ameiko loves having them around.
Also, I agree with Kaer Maga; Katapesh and places in the Shackles too, most likely.
Molthune is very open to Monstrous lawful creatures. They'd probably make you a scout or something.
I second Andoran, and reportedly Nex also allows anyone who behaves properly.