Generally speaking the Missouri State Guard is considered confederate. With that said understand the MSG was a state militia raised by the then currently elected government of the state (lawfully I might add) with the stated intent to protect the state from the "invasion" of "federalized" (unlawfully) militias rasied by Lyon, Blair, and Fremont who shortly thereafter declared marshal law in Missouri for the purpose of preventing the state from seceding. After the battle of Elkhorn Tavern/Pea Ridge, most of the MSG units were enrolled into the CSA army, however many of the men opted instead to return to their native state of Missouri and continue the fight as what we would call insurgents today. Without argument Gov. Claiborne Fox, was sympathetic to the southern cause and favored seccesion, interestingly though the state convention he called to consider the matter voted to remain in the Union with a strong "states rights" clause and call for the Federal government to respect the neutrality of the state. This resulted in some really strange bedfellows in 1861, as many of the slave owners voted to remain in the Union to protect their property rights (slaves). So Missouri is a bit unique in that it clearly had an Army, the MSG, raised and fighting independent of the CSA even though the general strategic goals were parallel most of the time.

John R