There are many changes announced in the changelog for 0.4.91 that I expect will improve the game a lot - perhaps it's already intended this or similar way but I would like to point 2 small details needed in relation to the waypoint changes:
1. Rotation after burn shouldn't reset when you tweak a waypoint (after it was set) or even just accidentally left-click it (as it resets, currently) - it should reset only with the rest of movement order by right-clicking a waypoint (the way it resets , currently) and additionally by eg. shift-right-clicking when the rest of the movement order is intended to be left unchanged (that is if you want to reset only the rotation)
2. There should be a way to hide all waypoints even with a ship selected (shift- or ctrl-V ?) because I am sure you will get many such requests from players that don't want waypoints on their screenshot and at the same time they want to show other parameters of a selected ship.