Complex sentence: The Khalqists would remain in control of the Ministry of Interior, but the Parchamite were given control over KHAD, the secret police--the Parchamites and the Khalqists controlled an equal share of the military.
Split into simpler sentences: The Khalqists would remain in control of the Ministry of Interior, but the Parchamites were given control over KHAD, and the secret police. The Parchamites and the Khalqists controlled an equal share of the military.