It should count. The DoD has different interests than FBI and CIA. It should make sense that DoD wants encryption, it makes their jobs easier. It should also make sense that the FBI and CIA don't want encryption, lack of makes their jobs easier.
Just because they're both government agencies doesn't mean they are colluding against the people. Different agencies have different agendas and prerogatives. It's also well known that agencies often fight over things and don't exactly work together well.
Why? Here's an analogy. People that are in charge of defending kings are pro castles (it helps them defend their kings). People that are in charge of killing kings are anti castles (it is easier to kill a king if they aren't in a castle).
Why is this a difficult concept to grasp? All agencies are pro "agenda that makes my agency's job easier".
