I went to Indonesia back in October this past year and it was great. The reefs are healthy, beautiful ecosystems. There was more fish/coral species there than any other place I’ve dove (and I’ve been to Bonaire, Roatan, Egypt, and the Cook Islands). Interestingly, we met an Austrailian couple there honeymooning, and they said the Great Barrier Reef is too touristy, and is actually being extensively damaged due to it’s popularity as a dive destination and they actually went as far as saying "don’t waste your time/money". I have to say, it’s still on my list of places to dive, but based on what I heard, do some type of liveaboard there where you go far out to the outer reef. I can say from experience though the reefs of south east Asia are amazing...I’d go to Thailand (or even consider Indonesia, I could get you information if interested).