Program only sees 1 input device

I have a program (advancemame) running on Raspian (Raspberry Pi) which like most programs gets its input from the keyboard. I'm using a program which implements uinput to convert GPIO pins HI/LOW readings to key presses (pikeyd). I run pikeyd in the background from the terminal, which has a GPIO pin mapped to key 5. I set the corresponding GPIO to HI, it prints out "5" to the terminal.

However, when I run advancemame, it doesn't recognize the uinput. If I unplug the keyboard and reboot, then advancemame sees uinput and everything works. From what it looks like is the program will read the first input device, input0 (keyboard). Is there a way to make uinput input0? That is, set the order of the input devices

$ ls /sys/class/input/
  event0  event1  event2  input0  input1  input2  mice  mouse0  mouse1

$ ls /sys/devices/virtual/input/input2/
  capabilities  event2  id  modalias  mouse1  name  phys  power  properties  subsystem  event  uniq

I'm not sure if there is a setting in advancemame that will look at all input devices. I have 3 images I built from scratch, 1 of the 3 images works where advancemame sees all the input devices. I can use my uinput and the keyboard at the sometime. I've compared config settings between the images and can't seem to find why one works and the others don't. I am wondering if it may be a security permission.

Also, is there a way to disable event0 and event1? I am not using X11, so xinput is not an option.

EDIT

Here are my input devices:

pi@raspberrypi ~ $ cat /proc/bus/input/devices
I: Bus=0003 Vendor=0d62 Product=0500 Version=0100
N: Name="2.4G Wireless Keyboard with Touchpad"
P: Phys=usb-bcm2708_usb-1.2/input0
S: Sysfs=/devices/platform/bcm2708_usb/usb1/1-1/1-1.2/1-1.2:1.0/input/input0
U: Uniq=
H: Handlers=sysrq kbd event0 
B: PROP=0
B: EV=120013
B: KEY=10000 7 ff9f207a c14057ff febeffdf ffefffff ffffffff fffffffe
B: MSC=10
B: LED=7

I: Bus=0003 Vendor=0d62 Product=0500 Version=0100
N: Name="2.4G Wireless Keyboard with Touchpad"
P: Phys=usb-bcm2708_usb-1.2/input1
S: Sysfs=/devices/platform/bcm2708_usb/usb1/1-1/1-1.2/1-1.2:1.1/input/input1
U: Uniq=
H: Handlers=kbd mouse0 event1 
B: PROP=0
B: EV=1f
B: KEY=4837fff 72ff32d bf544446 0 0 1f0001 20f90 8b17c000 677bfa d9415fed 9ed680 4400 0 10000002
B: REL=143
B: ABS=7f01 0
B: MSC=10

I: Bus=0003 Vendor=0001 Product=0001 Version=0001
N: Name="uinput-sample"
P: Phys=
S: Sysfs=/devices/virtual/input/input2
U: Uniq=
H: Handlers=sysrq kbd mouse1 rfkill event2 
B: PROP=0
B: EV=100007
B: KEY=10000 ffffffff ffffffff ffffffff ffffffff ffffffff ffffffff ffffffff fffffffe
B: REL=3

Any help is appreciated.