(Font author here)
I whole-heartedly agree. I am a native speaker, and "fluent" in jyutping, yet I have such a hard time with Yale.
One service I'm going to build is a mapping tool between {R1, R2, ...Rn} and {G1, G2, ...Gn} where R is romanization method and G are y/z-variants of glyphs. (These, for the most part, already exists inside packages I built for building the font, and just need to have an UI to expose it to the world.) It would sure save me lots of time trying to read Matthews-Yip...