I'd like you to take command of this united military force.
Literal
Your-honor [to-に], this unified-army [possessive-の] command [object-を] take-[receive-てもらいたい].
統合軍 'unified/joint military force.' 指揮をとる 'to take command.' ~てもらいたい 'I want you to (do X for me)' — a request framed through the receiving perspective. 貴君に again signals formal military address.