Check out www.divealor.com great diving but a tad expensive. There is a fairly new liveaboard doing the Raja Empat area, I've heard one very good report www.komodoalordive.com (I dove out of the land based Irian Diving a few years back, it seems they have been having some problems lately but I can say the diving in the Raja Empats is very good)! You have probably heard of Wakatobi www.wakatobi.com which caters to macro photographers - it has excellent diving and with it's great house reef, you can get in 5 dives a day (they offer 3 boat dives a day)! There are also a number of dive operators out of Manado and Bunaken Is. as well as one I can recommend on Lembeh Is. http://gb.diving-on-sulawesi.com/gb/ PNG has always been one of my favourites, however, it's expensive to get around and the topside life is much different. I ended up doing a trip down the Sepic River and spend some time in the highlands where I caught an absolutely unique cultural show!
Good luck!!
Good luck!!