I am kinda in the same situation. I received a casino offer for a free interior. I booked it then later upgraded and paid for a concierge class cabin. I only received 2 points per night, when I thought it should be 5. I sent an email explaining the situation and received this response....
"Thank you for reaching out to us.
Upon review, I see that you originally booked an Inside stateroom and was upgraded to a Concierge Class. Please be advised that the club points will be based on the original stateroom booked. Inside stateroom will be 2 club points per night (12 x 2 = 24). Therefore, the points you earned for this sailing is correct"
Doesn't it matter that I paid for the upgrade?