Rovers had initially invited the team to Brockhall for a training camp but India are now due to travel to Dubai instead.
“Blackburn (Rovers) have told us that this is not the right time to visit the club,” said All India Football Federation general secretary Kushal Das.
“They are going through some management problems at the moment.”
Blackburn's owners, the India based Venky's group, are keen to establish links between the Premier League club and the game in their homeland.
Rovers travelled to India last October to train and play a friendly, the first Premier League team to do so, and a return trip to Lancashire was planned this month.
The use of the words 'management problems' has fuelled speculation in many quarters that boss, Steve Kean's future is now in doubt.