? De Jure or De Facto?.Segregation exist in the CSA until the 1990's (paralleling apartheid in south Africa)
De Jure Segregation was a reaction to the Voting Rights act and to the Carpetbaggers, Neither of which You will have here.
Separate but Equal [Fergusson 1896] was the result of The New York Chapter of the NAACP instigating and Funding the Lawsuit.
Then there is the Fact that a lot of the Jim Crow Laws were first passed in the Northern States , then adopted by the south.
A lot will hinge on How & When you solve the Slavery Issue.
If the CS takes and holds Arizona till the CS victory at Antietam, and the CS taking of Washington, Then Juarez is forced out of Hiding in Arizona. This would allow the French to capture him and some of his top People. The Capture and execution of Juarez would take a lot of steam out of the Resistance.Still, I don't see how Maximilian Hapsburg is going to survive in Mexico, and that means that neither Sonora nor Chihuahua are going to be sold.
However the selling of Sonora and Chihuahua would cause everyone in Mexico to rise up.
But there is Baja - The Reason Mexico has Baja and not the US is simple --Mexico Lost the Card Game.
depends on when the CSA buys Baja.you can either have the CSA buy them (reasonably unlikely with the shortage of money that they'd have) or have a war with Mexico.
The South went Bankrupt in the 1830's, recovered by the late 50's, was devastated by the Civil War, and recovered by the late 80's [King Cotton and the Cotton Barons] to a extent far beyond the 30's or the 50's, so the Money is there.
I see the CS buying Baja in the 1890's and having Tijuana as the Pacific Terminus of the Confederate Trans-continental.
Political Isolation is not the same as Economic Isolation. A CS that refuses to get involved Politically or Military, can still trade with everyone.The CSA is very insular for the first few decades of its independence, choosing to isolate its self from the rest of the world till it can get its own house in order. They spend much of their time trying to build up an industrial base to compete with the USA
I see Cuba becoming Independent in the late 1890's, and becoming a Industrial Powerhouse of the Caribbean. Perhaps taking PR from Spain during the Spanish Civil War.