This really hits the nail on the head. This is very important, not just with tropical meteorology, but can be applied to long-range forecasting as well. The structure and evolution of features is way more important than phase (and even at times, strength) but getting to that understanding can be quite difficult just because of how complex the atmosphere is.
Wave breaking is rather fascinating. It's really cool to look at a world map during the fall/winter months and see wave breaking in action and how it helps to shape the downstream pattern. The MJO is also highly intriguing. While it gets used heavily in medium-to-early long range forecasting and especially with tropical I think sometimes it gets too much weight put on it...and I say this because it is not an easy feature to forecast. Since it is pretty much tied into convection it makes it very vulnerable. We've seen plenty of times before where even if models are in strong agreement with its evolution the verification still ends up way off.