I believe the only state in the conflict that didn't suspend habeas corpus was North Carolina(thanks to our great Governor Zebulon Vance).
As for Taney, I read in a footnote of Emancipating Slaves, Enslaving Free Men that Lincoln may have put out an arrest warrant for him, can anyone confirm that(preferably with a source)?
I can look for the book if you want. It is around here somewhere. The book was pro-North and pro-Union, so I don't think that arrest warrant was made up by southerners.
Lincoln, and Republicans were pretty p***ed at Taney for the Dred Scott decision. Lincoln was not the moderate that is sometimes portrayed in the high school history books.
The account of the plan to arrest the Chief Justice and the execution of the order for his arrest is confirmed by two trustworthy independent sources of information -- [federal marshal Ward Hill] Lamon himself, in his personal papers in the Huntington Library's rare book and manuscript collection, and Professor Francis Lieber, author of the famous Lieber Code, which Lincoln endorsed...Both Lamon and Lieber were, throughout their lives, ardent Unionists. Lieber's private papers are also at the Huntington Library. Lieber noted that Lincoln gave Marshal Lamon the arrest warrant for Taney along with permission to make the arrest. This confirms Lamon's account in detail.Adams also lists as a source Harold M. Hyman, A More Perfect Union: The Impact of the Civil War and Reconstruction on the Constitution (New York, 1973), 86 n.15 and 84 n.8, in his endnotes.
-- pages 48-49
Hope this is of some help.