Connecting a controller with the problem being the console

The console physically restarts whenever I turn it off. The controllers turn off with the console. By phantom controller I meant that my console shows a controller being connected despite my two controllers being turned off.

Everything is normal on internet but controller is not being able to connect to xbox one either even if I connect a cord directly into controller and xboxone console.

the console has a single function of connecting the control, all the imputis are from the control, a cable can cause the problem or connector, but if it is connected via bluetooth, the problem is in the control.

Your controller cannot wireless connect the console?

or your controller cannot power on?

If your controller cannot power on,

You can try to usb connect, If work, this maybe your batteries problem,

If not work too, you need get the new controller or fix it.

If you cannot wireless connect,

you can try use other controller wireless connect the console,

If can other controller wireless connect is not work too,

this is your console problem,

else, controller problem.

If you have xbox controller wireless adapter for windows,

you can try it

Update: I've narrowed it down to being a problem with the second connected controller. I tried skyrim twice with each controller (first connected controller) in separate sessions (power cycled and everything) and both times no problem with the controller.
In minecraft (separate sessions, power cycled) the problem each time - alternating controllers - and each time the issue was with the second connected controller. tried other 2+ player games and had the same issues I am having with minecraft. Please help!