But IIUC, this was not part of the agreement with SPG; this was an agreement with the hotel. I don't see any reason why the sales manager cannot issue the missing points as Goodwill points.

Alternatively, perhaps they could resubmit the rate as being for quadruple points since the results would then be the same as what was promised:
2x base + 1x elite bonus + 6x quadruple promo rate = 9 points per dollar.