Gamepass game I own issue

Try a cycle power that could wotk https://support.xbox.com/help/hardware-network/power/restart-or-power-cycle-console

Yeah, sometimes there are problems with that. I had a problem with GTA 5. Try power cycle your console: https://support.xbox.com/help/hardware-network/power/restart-or-power-cycle-console

Also, try remove and then add again your account on machine.

Also:

Try Settings. Select All settings. Select System and then select Storage. Select Clear local Xbox 360 storage. Select Yes and restart the console. (This will not affect your cloud saved games or Xbox One games and profiles.)

Another thing is the factory reset with option keep my games and apps.

https://beta.support.xbox.com/help/hardware-network/console/reset-console-to-factory-defaults

If problem is not solved contact support: https://support.xbox.com/contact-us

Yes, unfortunately if a game is on GamePass and you are a subscriber, that license will override any licenses that you have for owned games (and sometimes content). This will revert back to your owned games once the game leaves GamePass.

Save games are transferrable.

Your other issue is one that I've experienced as well. While it isn't a proven solution, I would recommend a hard reboot of the console.

With the console on, push and hold the power button until the console fully powers down and the power light goes off.

Remove the power cable from the rear of the console for about 5-15 minutes. (unplugging the console from the wall outlet does not count... the cache will only be cleared when you remove the wire from the back of the console).

Plug everything back in and restart the console.

I'm not sure about the second issue, but about the Game Pass quests, that's normal.

Do you own gamepass or are you gamesharing? Do you have issues with other gamepass games?