I also have the issue that indiserver can't be started from Ekos (in local mode).
If you just forgot the export commands, it should be enough to export the paths like Rob said and run cmake and make install again for kstars (maybe clean the build directory), it shouldn't be necessary to start from scratch in that case. And if you encounter any "Mac OS X RPath" errors with cmake (which happened to me) you can pass a -DCMAKE_MACOSX_RPATH=1 option to cmake.
Wiat a moment, you both have the same problem with not being able to start indiserver in local mode? The main difference on my computer i think is the path to the indiserver. Mine is not in /usr/local/bin but in /usr/bin. Unless you are also both using Sierra? I might look at the code to see if there is any reason the folder could cause a problem
I'm using Sierra (fresh install), the Indi control panel isn't available in Kstars at all, and in Ekos you can't start a local server nor connect to an external one. Also, profile saving isn't working.
I've started a fresh install of the laptop yesterday night, now going through qt5 install....
And I am documenting everything, saving terminal output which I will share once it's done.
Kstars Mac osx
Odroid C4 / WO Redcat51 / CEM25p / ZWO533MC / QHY5L-II-M (OAG)
When you are at the cmake step for kstars, you can use that to sort of diagnose your problems. It will tell you what it found and did not find. If it says it could not find indi, you will not have the indi control panel or ekos in kstars. If it doesnt find xplanet, that will not show up in the preferences, nor in the menus. If you find that it says things are missing that you did want in kstars, you will want to go back and fix them and then run kstars cmake again.