I'm sorry to report that there's ABSOLUTELY NO GAMES ON THE GAMEBOY THAT UTILIZED ANAGLYPH 3D EFFECTS.
The main reason here is that the original GameBoy ran on a PURELY MONOCHROMATIC LCD SCREEN that is able of showing only 4 shades of black (White, Light Grey, Dark Grey & Black). The Anaglyph 3D effect requires the usage of Red & Cyan (light blue) shifted images that the original GameBoy cannot generate. The GameBoy Color & Advance could, but no games were developed for this.
Nintendo's first attempt at portable console with 3D visuals was with the Virtual Boy with stereoscopic visuals (2 screen showing a slightly shifted image for each eye to create the 3D effect), which was quickly discontinued a few months after release. The 3DS was the second attempt at a portable console with 3D visuals, which utilized an autostereoscopic screen to create the 3D visuals (which shows a slightly shifted image for each eye behind a polarizing filter) to more receptive audience (although it faded quickly with the 3D visual fad, which prodded the creation of the 2DS).