Levy wouldn't be the first leader to get the big, practical things done well (e.g. managing expectations with The FA and securing Wembley) but fail so miserably on the communication, culture and brand piece. It's very common for leaders to put that lower down in the priorities when it's where you should be spending the major part of your time when things don't go to plan.
The project management 101 piece (scope, time, budget, quality etc) you can't directly influence too much at your senior level but the brand and culture is yours to own. Levy can look back and realise the mistakes of the way comms were handled (e.g. brand of NFL > brand of your fans). He would know that there was a half baked contingency plan for season ticket holders and a mad scramble to get something together.
If he's smart (which he clearly is) he can see the direct correlation between his leadership actions and the public shit storm that has happened. He went from the guy executing on an amazing vision for a club steeped in tradition, to the guy who draws blanks in the transfer market and doesn't give 2 hoots about his own fans. All that, in a space of 5 days. That must have hurt. Levy would have learnt some tough lessons from wearing that 2nd hat for the last few years. It wasn't an easy gig.
I'm of the opinion that these basic errors by Levy and co will be soon forgotten when we start to enjoy the brand new stadium and everything that comes with it.