Hey Poltro,
I just created the script to make things easier to install and setup Moonlight-Embedded. I have just updated this script today BTW to include a new menu based structure for an even easier solution. In regards to the controller mapping, this is now all stored in a txt file within the Moonlight program. It's called gamecontrollerdb.txt and contains the mapping for over 100 different gamepads. Here's what I could see in that file:
xwc,X360 Wireless Controller,a:b0,b:b1,back:b6,dpdown:b14,dpleft:b11,dpright:b12,dpup:b13,guide:b8,leftshoulder:b4,leftstick:b9,lefttrigger:a2,leftx:a0,lefty:a1,rightshoulder:b5,rightstick:b10,righttrigger:a5,rightx:a3,righty:a4,start:b7,x:b2,y:b3,
AND
030000005e0400009102000007010000,X360 Wireless Controller,a:b0,b:b1,y:b3,x:b2,start:b7,guide:b8,back:b6,leftstick:b9,rightstick:b10,leftshoulder:b4,rightshoulder:b5,dpup:b13,dpleft:b11,dpdown:b14,dpright:b12,leftx:a0,lefty:a1,rightx:a3,righty:a4,lefttrigger:a2,righttrigger:a5,platform:Linux,
If Right Trigger is Start, try changing righttrigger:a5 to righttrigger:b7 and start:b7 to start:a5
Let me know if that fixes it here and also, let everyone know what model your controller is and the model of the receiver as that may offer some clues as to why your mapping is different :)
Latest Video is here btw :
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