Ballantyne's manager, Colin Young, wrote to the AFL explaining the circumstances of the Peel Thunder forward's failure to attend last Sunday's screening.
Attending either the NAB AFL Draft Camp or a state screening session is compulsory for those hoping to be drafted.
The AFL announced on Wednesday that Ballantyne, 21, would be allowed to enter the draft provided that he attends a screening session to be organised next week when he returns to Australia.