On a sunny day (Fri, 20 Jul 2018 10:21:23 +0100) it happened Harry Bloomfield
 wrote in :

>I have my R Pi 3 B+ on my LAN, with latest NOOBS, setup to download
>weather via USB from my weather station and present it as a webpage.
>During the early hours, I have the Pi configured to do a reboot and
>reload the software for the weather - that works fine.
>
>What I have found, is that if I also reboot via the GUI reboot option,
>it also loads the weather interface software and it carries on as
>normal
>
>If instead, I type at the command line 'reboot', it doesn't reload the
>weather software. I have to manually load it all in.

Where did you specify the starting of your weather software?
In
 /etc/rc.local
or in
 ~/.xinitrc

For it to start when no GUI is present use /etc/rc.local

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