Command of doctrine I organised (9)
I believe the answer is:
direction
'command' is the definition.
(direction is a kind of command)
'doctrine i organised' is the wordplay.
'organised' is an anagram indicator.
'doctrine'+'i'='doctrinei'
'doctrinei' anagrammed gives 'DIRECTION'.
'of' is the link.
(Other definitions for direction that I've seen before include "Guidance" , "The way in which something is moving" , "Trend, tendency" , "Management" , "Tenor" .)