Thanks for the welcome!!!
1 - So I created extra "Systems" with games list. I see two lists of "SNES" for example. I have deleted the extra notepad files - but it has deleted all games in that section - but the section is still there. Any ideas?
UNSOLVED
You might still have the "display" or the "romlist" in there so AM is still loading it. You will have to make sure to delete BOTH the emulator AND the display just to be on the safe side.... That is done from with-in the AM menu i.e. In the AM main menu "emulators" from there pick the emulator and then near the bottom choose "delete this emulator" Next the displays menu from there pick the display and then near the bottom choose "delete this display" then restart AM just to be on the safe side.
2 - I believe this is the file you are looking for ? https://drive.google.com/open?id=1uPFU1-2qPYBAgZbkcxsZajK1QB12cXem . I have double checked that the extensions are listed in AM. UNSOLVED
Actually those are not the files I need. The files I need are located in the /home/pi/.attract/emulator folder (notice the DOT in front of the attract folder..makes the folder hidden but it IS there!) From the terminal on your pi reached from pressing F4 on your keyboard that is plugged into your pi..type
cd ./attract/emulators
then
nano your system.cfg (your system being the name of the file itself! (ex. super nintendo.cfg)
if you have remotely connected to your pi via SSH you can log into it and retrieve the file that way.
As for the log file it is in /dev/shm and the file is called runcommand.log
so type
cd /
then
nano /dev/shm/runcommand.log
then you can paste the output from there
(Examples at bottom of this post.)
3 - I actually figured this one out! Just redownloaded the files and they work now. Sweet!! SOLVED
Again that might have something to do with the extension that was needed. But glad you got it working!

4 - I will check out that section for my solution, thanks! UNSOLVED
Examples of files needed:
runcommand.log
found from a terminal by typing
nano /dev/shm/runcommand.log
Parameters:
Executing: /opt/retropie/emulators/retroarch/bin/retroarch -L /opt/retropie/libretrocores/lr-mgba$
Failed to open /home/pi/RetroPie/roms/gba/Army Men Advance (USA).srm: No such file or directory
[CDROM] No sg devices found and sg kernel module is not loaded.
This file is good for you to know..it outputs anyerrors at launch..thus giving you clue what is wrong and how to fix it. This info posted here is what a linux terminal would output normallly if the program was launched from a raw terminal.
Attract Mode configuration file:
found from the terminal by typing:
ls .attract/emulators
to see a list of files..and then form the /home/pi directory (if you want to know where you are type
pwd)
nano .attract/emulators/nes.cfg
an examle:
# Generated by Attract-Mode v2.6.1
#
executable retroarch
args -L /usr/lib/x86_64-linux-gnu/libretro/fceumm_libretro.so "[romfilename]"
rompath /media/user/nes
romext .zip
artwork boxart /media/user/nes/images/boxart
artwork cartart /media/user/nes/images/carts
artwork flyer /media/user/nes/images/covers
artwork snap /media/user/nes/images/videos
artwork wheel /media/user/nes/images/wheels
again good to know where they are so you can make manual changes if needed