I don't know if there really is a graceful way to do a complete tear down. Fans develop emotional attachments to a roster and inevitably the guys tearing that apart are going to be the enemy.
I think Shapiro and Atkins have done a masterful job.
They have no doubt made some mistakes along the way, which in baseball is bound to happen, but the positive moves have largely outnumbered the negative ones. The surplus value gained with guys like Teoscar Hernandez, Gurriel Jr, Robbie Ray, Stephen Matz, Semien, the list goes on and on, has allowed them to spend money on Springer and Ryu.
I personally love their emphasis on development, creating that state of the art complex in Dunedin is a huge moment for the Jays franchise. Every team has an analytics department, every team looks to unearth inefficiencies in the baseball market, but the next big wave is development. Unearthing surplus value in players through world class development tools will be the next big "moneyball" wave.
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