Both armies, USA and CSA, would be plagued by the political intrigues of the time and many a general on both sides gained their stars not because of their leadership ability or battlefield prowess but because of who they knew in the halls of civillian power in Washington and Richmond.
Blair used his influence to disrupt Harney's operations in the West perhaps for the better good of the Union but IMHO it came at the expense of immediate and local civil unrest in St. Louis. I admit I'm a centrist in this view and as I've said before, one can't help but wonder if the war in Missouri would have been different if the extremes of both sides like Lyon and Jeff Thompson had been mitigated more effectively by the likes of Price and Harney. The rub for many folks is that I consider Harney, one of only 4 full generals at the time, not only competent but perhaps the most well informed about the military competencies of both sides in the western theater in early 1861. IMHO his knowledge base and the respect held by many of him in the West was squandered by leadership in Washington and St. Louis.
http://freepages.genealogy.rootsweb.ancestry.com/~harney2/General/military.htm
http://www.civilwarstlouis.com/peckham/index.htm
http://www.civilwarstlouis.com/History/Blair%20&%20Lyon.htm
http://www.usgennet.org/usa/mo/county/stlouis/acw.htm#"Securing Missouri For the Union"
I'll be quiet now.
John R