So you're running TrueTransparency and/or Windowblinds to get transparency on your system?
It still definitely looks like something related to that, there's even an overlay problem visible in your screen (that black bar in the game) which looks like it might even somehow come from the cheat window...which by the way is about 1.5x the size it's meant to be...perhaps though you should try stretching it even more.
Either way it's definitely something on your system and not no$gba's fault.
By the way I only noticed this now but that looks like Pokemon Diamond/Pearl/Platinum...so trying to cheat with no$gba is going to be rather ineffective anyways as no$gba often crashes with AR codes used on those games (Pokemon games in particular are a problem for some reason, most other use AR codes fine) so most people just use Pokesav so I suggest you do the same.