His muster card in Cook's Boone Co VMM is here:
https://www.sos.mo.gov/Images/Archives/Military/s00889/s00889_1525.pdf
The murder case is here State v. Franklin, Case No. 5941 (Boone Cnty. Cir. Ct. 1865), microformed on C 19734 (Mo St. Archives) but a motion for change of venue was made and apparently granted, but there is no record of county to which case was transferred.
I think he ends up in California. A place common for dubious characters from Missouri to end up.