Wickersham's "foundation" for his claim about a BB-Kraft rift is his claim that BB wanted to trade Brady and keep JG but Kraft "ordered" BB to keep Brady and trade JG.
Miguel tweeted something yesterday that destroys that argument (I think), and I haven't seen it mentioned yet in this thread.
If Brady had been traded before June 1st, the remaining $14M of his most recent signing bonus would have accelerated into 2017 and become new dead money against 2017 cap space. If the trade had happened after June 1st, $7M of that would have become dead money against the 2017 cap, and the other $7M against the 2018 cap. That would've been okay WRT the 2018 cap, since it would've resulted in a net $8M in cap savings. The problem is with the 2017 cap.
The Pats haven't had anywhere near enough cap space to absorb even an additional $7M cap hit since well before the trade deadline, and they have less than $3M left in 2017 cap space now as it is. It appears to me that they simply couldn't have traded Brady and stayed under the cap in 2017. So, perhaps there was some disagreement between BB and Kraft over which QB to keep, but the cap situation may have rendered any such disagreement moot.
If I'm wrong about this, I'm hoping that Miguel will chime in and correct me.