Some of the days you end up doing treks or a lagoon trip or a BBQ instead of a night dive. It’s not unique to Raja as I have seen this in Komodo, too. The 10-12 day itineraries I am doing or have done are north central and south. Longer distances.
I was on another boat (Pearl of Papua) doing a 10 night/11 day itinerary with 31 dives. We had 5 days with 4 dives a day, 2 days with 3 dives, 2 days with 2 dives, and 1 day with 1 dive (boarding day) for a check dive.
I’ll have to look back on my logs for the first time I was in Raja with the Raja Ampat Aggressor but that was 7 days.
My next trip back out there is an 11 night/12 day which is 33-36 dives on yet another boat. (Ambai) It’s still proportional to the Calico and my last 11 day trip there. I’m a Raja junkie and can tell you this is pretty normal. You will also find on trips like Banda Sea crossings, they cover 80-100 nautical miles on some days and fitting 4-5 a day is not possible given the distance.