They could have paid him more a couple summers ago.
Supposedly, he took a paycut with a wink-wink (read: illegal) agreement that he'd get it back on the back end.
Why do that? Two reasons:
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Luxury tax limitation. If you're in a very high tax bracket, pushing a dollar today into tomorrow can have more than a dollar's worth of impact on your expenses.
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Roster-building asset maximization. In this case, by taking a certain amount, they could use the non-taxpayer Mid Level Exception to sign a better player than they could sign with the Taxpayer MLE. Once you sign someone to the Nontax MLE, you are hard-capped for that league year. But the next year, you can blow right past that number while still retaining the guy you signed on the MLE the year before.