Factual error: In the episode originally aired on 10/24/05 entitled 'Under Suspicion' Walter Dresden's DNA was positively linked to a murder in Orlando. Even if the judge dismissed the case against him in Miami, he would have been transported to Orlando to stand trial for that crime, not simply released.
Plot hole: There is a large amount of blood found at Rachel Turner's apartment and it's determined to be Horatio's. He is subsequently arrested. Why wouldn't he be checked for a cut? To bleed that much would require a large cut and since it was only 24 hours it wouldn't have had time to heal, therefore proving that the blood although his had to be planted. That's too large an oversight by the police to just be a character mistake.
Answer: Yes, sizes of jails differ.