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EDIT: Never mind that, I figured out what the problem was and it was unrelated. I just happened that something updated at the same time I ran the code and I thought it was the code that did it. (uninstalled updates to google search to fix) Sorry.
ok, so I have the update installed and am rooted. But now anytime I try to search in the application tray I get a message box saying that "process com.motorola.home has stopped unexpectedly". It didn't do that before I ran the root part of the code so I suspect it is because of that. This is what I ran and got back from the cmd prompt
C:\fastboot>adb shell
$ /preinstall/dosu
/preinstall/dosu
bash: groups: command not found
root@localhost:/# /bin/mount -o remount,rw /system
/bin/mount -o remount,rw /system
root@localhost:/# cp /preinstall/su /system/bin/
cp /preinstall/su /system/bin/
root@localhost:/# chmod 6755 /system/bin/su
chmod 6755 /system/bin/su
root@localhost:/# PATH=/system/bin:$PATH
PATH=/system/bin:$PATH
root@localhost:/# pm install /preinstall/Superuser.apk
pm install /preinstall/Superuser.apk
pkg: /preinstall/Superuser.apk
Success
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