Well, I believe the NES collection games did that as well.
I have the Kunio Collection with Dunk Heroes and it does some weird flickering thing.
From an emulator, I'll guess the Hudson collections do that as well.
I wonder if they're using a common emulator like PocketNES (I've only heard people specifically say Jaleco's compilation used PocketNES, which it seems is legal since the author didn't forbid it).
The Famicom Mini/Classic NES also uses emulation but I'm guessing Nintendo shrunk the screen but modified the graphics to reduce the quality hit.
Mother 1 and 2 I think were actually ported. (I know Mother 1 used single-spaced text windows, including being able to change the color of a single (1 tile high) line, which isn't possible on NES)