Is there some way to set separate port for every separated IDE instance ?
Now, if you are running two instances of IDE and both are for separated boards, you must change the port from the menu every time you burn either board.
For example I'm building a system, where two Arduino Nanos, 'A' and 'B' are talking to each other over SoftwareSerial. When I make changes to 'A', I must change port there. Now also the monitor runs for 'A'. If I want to see monitor for 'B' I must change the settings and lose, what there is in monitor 'A'. Of course I can and must use for example minicom here, or have two separate laptops, but this does not sound very 'professional' to me. Using two PC makes the project handling and documetantion very hard.