I have been to Raja Ampat 9 times (3 times in dive resorts & 6 times on liveaboard) from November to April in Misool when the weather started to get rough in the south and in May in Central when the fresh water started to get scarce & bathing in brackish water, but have never done it in October. So no data to tell.
I’ve been to Komodo 4 times (all on liveaboards), once in June, twice in August, and once in December. August was my best time to be there and plan to go back again in August this year.
If you want to go there in September - October, I would recommend to take the trip from Bali to Komodo and back to Bali. I have done in twice and the 3rd one is this coming August. The nice thing about this trip is you not only would be diving in Komodo, but also in Bali for Manta & Mola Mola, in Sumbawa for Whaleshark, in Sangeang for volcanic bubbles coming from the sandy bottom.