Orders yet to be transported by ship (9)
I believe the answer is:
destroyer
'ship' is the definition.
(destroyer is a kind of ship)
'orders yet to be transported' is the wordplay.
'to be transported' indicates anagramming the letters.
'orders'+'yet'='ordersyet'
'ordersyet' with letters rearranged gives 'DESTROYER'.
'by' is the link.
(Other definitions for destroyer that I've seen before include "Large warship" , "killer" , "Heavily-armed warship" , "Small, fast warship" , "Vandal" .)