I usually do the full binary install, or if there are just a few emulators to update I do that individually. And with any update its good to have a backup just in case the updates don’t go according to plan/mess up configs. Its really personal preference. Other times I’ll just flash a new SD image.
OK, is there a way to find out the build of retro pie from the command line?
The reason I ask is that the new beta 3 says that the controller settings you set up at the start in emulation station carries across to the emulators but I have found that the neo geo one is still as I set it up.
Is it a case that they only carry across if the emulators have not been set up before i.e. is it probably best that I start with a fresh SD card?
Yes configs can get buggered up with new builds if you already have some in place, with this latest beta its probably best to start from a fresh SD image. As far as finding out the version you have from command line there is no method I know of as there are constant rolling updates and bug fixes.