I know you can put the cookies directly in the config file, but the point of putting the cookies in the command line is that you can have multiple intagram accounts with a different cookies files for each. I probably should have mentioned that.
For example, I have three instagram accounts, and depending on whether or not I'm following a private account with one or not, I'll use a different cookies file, and I find that having multiple config files or going in the config file to change it is more tedious than just different command lines. It also lets me rotate between the three accounts to download every day so it's even less likely that instagram notices suspicious activity.
Could you share what your config looks like for instagram or what modifications you made for it, generally ? I've been looking to optimize mine further but thought I exhausted the possible options for the instagram extractor.