Yeah I though that was kind of odd that a successful coach was canned for what seemed like a fairly commonplace thing these days. I think the crux of this situation is that BC's AD was more than a small bit upset that neither coach "Jags" or anyone from the Jets staff contacted him or anyone in the athletic department about Jags interviewing for the job. In essence it seemed a little sleazy. If they would have approached it in the right manner I don't think that there would have been a problem. Do I know that, no, but it seems that he and the university wanted a little consideration, and they honestly felt like they were being used.
Honestly for me, I really don't know where I stand on this one. Yes coaching is cut throat, but a well paid professional coach, in my opinion, deserves to give his employer a little consideration. On the other hand, I'm not sure I could stand if my current employer told me they'd fire me for interviewing for another job. It's both professionally inappropriate and personally limiting. As a matter of fact I was told that very thing by a previous employer, I promptly interviewed for a new job and left three weeks later; without any notice. They didn't care about me as a professional, or as a person with aspirations beyond what they could offer. So I felt no need to acknowledge them and their bullying policies.
As for this specific case, I read a short while ago (not sure where, so please don't request a link, it was speculative anyway) that Jags was not particularly fond of the responsibilities that come with being a college head coach (recruiting, visits, making appearances etc.) and may have left for a NFL coordinators position in the near future anyway. He spent a long time in the NFL and I'm guessing that he might be more comfortable there anyway. So ultimately I think that may be a valid factor in him forcing the situation with BC and it's AD.
I noticed a Tom O'Brien reference, and I can say that his leaving and Jags leaving may be somewhat related, but not directly. My Sister and Brother in law and NC State alum and now, I guess, would be considered boosters. From what they say, O'Brien made what seemed to be a lateral move to NC State, simply because he felt that they have a higher ceiling to the program compared to BC. I follow NC State casually, because of the family connection, and can personally say that there has been a MASSIVE influx of money, and a great desire to become relevant in college football there. Since Chuck Amato got the ball rolling, they have made huge improvements to their facilities. And O'Brien has said in interviews that it was overwhelmingly evident when he interviewed that it was a program with an upward trajectory and had a plan for future expansion and success. So maybe BC is a bit stagnate and the success that coaches have had there isn't matched with a commitment from the university to keep moving forward. That maybe, they seem happy to win some good games and not really ever be willing to make the jump to be a premier program. Just speculation on my part, but it seems consistent with history. With Tom Coughlin, O'Brien and Jags, BC seems to be a stepping stone job to me, and maybe it is, and the coaches may think that too.